-- dump date 20140620_070651 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1235461000001 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1235461000002 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1235461000003 active site 1235461000004 dimer interface [polypeptide binding]; other site 1235461000005 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1235461000006 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1235461000007 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1235461000008 shikimate binding site; other site 1235461000009 NAD(P) binding site [chemical binding]; other site 1235461000010 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1235461000011 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 1235461000012 CoA-binding site [chemical binding]; other site 1235461000013 ATP-binding [chemical binding]; other site 1235461000014 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1235461000015 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1235461000016 active site 1235461000017 catalytic site [active] 1235461000018 substrate binding site [chemical binding]; other site 1235461000019 Preprotein translocase subunit SecB [Intracellular trafficking and secretion]; Region: SecB; COG1952 1235461000020 SecA binding site; other site 1235461000021 Preprotein binding site; other site 1235461000022 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1235461000023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1235461000024 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1235461000025 MltA specific insert domain; Region: MltA; pfam03562 1235461000026 3D domain; Region: 3D; pfam06725 1235461000027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1235461000028 Smr domain; Region: Smr; pfam01713 1235461000029 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461000030 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461000031 non-specific DNA binding site [nucleotide binding]; other site 1235461000032 salt bridge; other site 1235461000033 sequence-specific DNA binding site [nucleotide binding]; other site 1235461000034 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1235461000035 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461000036 Mg2+ binding site [ion binding]; other site 1235461000037 G-X-G motif; other site 1235461000038 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1235461000039 anchoring element; other site 1235461000040 dimer interface [polypeptide binding]; other site 1235461000041 ATP binding site [chemical binding]; other site 1235461000042 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1235461000043 active site 1235461000044 putative metal-binding site [ion binding]; other site 1235461000045 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1235461000046 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 1235461000047 putative FMN binding site [chemical binding]; other site 1235461000048 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1235461000049 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1235461000050 tetramerization interface [polypeptide binding]; other site 1235461000051 NAD(P) binding site [chemical binding]; other site 1235461000052 catalytic residues [active] 1235461000053 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1235461000054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1235461000055 DNA-binding site [nucleotide binding]; DNA binding site 1235461000056 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461000057 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1235461000058 DNA-binding site [nucleotide binding]; DNA binding site 1235461000059 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461000060 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1235461000061 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1235461000062 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1235461000063 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461000064 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461000065 active site 1235461000066 catalytic tetrad [active] 1235461000067 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1235461000068 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461000069 putative ligand binding site [chemical binding]; other site 1235461000070 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461000071 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461000072 Walker A/P-loop; other site 1235461000073 ATP binding site [chemical binding]; other site 1235461000074 Q-loop/lid; other site 1235461000075 ABC transporter signature motif; other site 1235461000076 Walker B; other site 1235461000077 D-loop; other site 1235461000078 H-loop/switch region; other site 1235461000079 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461000080 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461000081 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461000082 TM-ABC transporter signature motif; other site 1235461000083 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461000084 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1235461000085 putative NAD(P) binding site [chemical binding]; other site 1235461000086 catalytic Zn binding site [ion binding]; other site 1235461000087 structural Zn binding site [ion binding]; other site 1235461000088 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1235461000089 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1235461000090 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 1235461000091 Protein of unknown function DUF45; Region: DUF45; pfam01863 1235461000092 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1235461000093 active site 1235461000094 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1235461000095 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1235461000096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461000097 catalytic residue [active] 1235461000098 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1235461000099 substrate binding site [chemical binding]; other site 1235461000100 active site 1235461000101 catalytic residues [active] 1235461000102 heterodimer interface [polypeptide binding]; other site 1235461000103 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1235461000104 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1235461000105 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1235461000106 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1235461000107 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1235461000108 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1235461000109 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461000110 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1235461000111 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1235461000112 catalytic residues [active] 1235461000113 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1235461000114 Family description; Region: UvrD_C_2; pfam13538 1235461000115 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1235461000116 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1235461000117 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1235461000118 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1235461000119 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1235461000120 Substrate binding site; other site 1235461000121 metal-binding site 1235461000122 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1235461000123 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1235461000124 Phosphotransferase enzyme family; Region: APH; pfam01636 1235461000125 PAS fold; Region: PAS_7; pfam12860 1235461000126 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1235461000127 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461000128 dimer interface [polypeptide binding]; other site 1235461000129 phosphorylation site [posttranslational modification] 1235461000130 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461000131 ATP binding site [chemical binding]; other site 1235461000132 Mg2+ binding site [ion binding]; other site 1235461000133 G-X-G motif; other site 1235461000134 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1235461000135 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1235461000136 homotetramer interface [polypeptide binding]; other site 1235461000137 ligand binding site [chemical binding]; other site 1235461000138 catalytic site [active] 1235461000139 NAD binding site [chemical binding]; other site 1235461000140 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1235461000141 dimerization domain swap beta strand [polypeptide binding]; other site 1235461000142 regulatory protein interface [polypeptide binding]; other site 1235461000143 active site 1235461000144 regulatory phosphorylation site [posttranslational modification]; other site 1235461000145 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1235461000146 active pocket/dimerization site; other site 1235461000147 active site 1235461000148 phosphorylation site [posttranslational modification] 1235461000149 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 1235461000150 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1235461000151 Hpr binding site; other site 1235461000152 active site 1235461000153 homohexamer subunit interaction site [polypeptide binding]; other site 1235461000154 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1235461000155 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1235461000156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461000157 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1235461000158 dimerization interface [polypeptide binding]; other site 1235461000159 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461000160 dimer interface [polypeptide binding]; other site 1235461000161 phosphorylation site [posttranslational modification] 1235461000162 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461000163 ATP binding site [chemical binding]; other site 1235461000164 Mg2+ binding site [ion binding]; other site 1235461000165 G-X-G motif; other site 1235461000166 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461000167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461000168 active site 1235461000169 phosphorylation site [posttranslational modification] 1235461000170 intermolecular recognition site; other site 1235461000171 dimerization interface [polypeptide binding]; other site 1235461000172 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461000173 DNA binding site [nucleotide binding] 1235461000174 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1235461000175 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1235461000176 active site 1235461000177 substrate-binding site [chemical binding]; other site 1235461000178 metal-binding site [ion binding] 1235461000179 ATP binding site [chemical binding]; other site 1235461000180 hypothetical protein; Provisional; Region: PRK09256 1235461000181 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1235461000182 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1235461000183 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1235461000184 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1235461000185 pantothenate kinase; Provisional; Region: PRK05439 1235461000186 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1235461000187 ATP-binding site [chemical binding]; other site 1235461000188 CoA-binding site [chemical binding]; other site 1235461000189 Mg2+-binding site [ion binding]; other site 1235461000190 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1235461000191 metal binding site [ion binding]; metal-binding site 1235461000192 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1235461000193 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1235461000194 substrate binding site [chemical binding]; other site 1235461000195 glutamase interaction surface [polypeptide binding]; other site 1235461000196 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1235461000197 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1235461000198 catalytic residues [active] 1235461000199 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1235461000200 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1235461000201 putative active site [active] 1235461000202 oxyanion strand; other site 1235461000203 catalytic triad [active] 1235461000204 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1235461000205 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1235461000206 putative active site pocket [active] 1235461000207 4-fold oligomerization interface [polypeptide binding]; other site 1235461000208 metal binding residues [ion binding]; metal-binding site 1235461000209 3-fold/trimer interface [polypeptide binding]; other site 1235461000210 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1235461000211 active site 1235461000212 HslU subunit interaction site [polypeptide binding]; other site 1235461000213 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1235461000214 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1235461000215 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1235461000216 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1235461000217 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461000218 Walker A motif; other site 1235461000219 ATP binding site [chemical binding]; other site 1235461000220 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1235461000221 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1235461000222 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 1235461000223 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1235461000224 Cytochrome P450; Region: p450; cl12078 1235461000225 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1235461000226 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1235461000227 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1235461000228 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1235461000229 active site 1235461000230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461000231 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461000232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5321 1235461000233 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1235461000234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461000235 active site 1235461000236 phosphorylation site [posttranslational modification] 1235461000237 intermolecular recognition site; other site 1235461000238 dimerization interface [polypeptide binding]; other site 1235461000239 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1235461000240 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461000241 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461000242 dimer interface [polypeptide binding]; other site 1235461000243 phosphorylation site [posttranslational modification] 1235461000244 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461000245 ATP binding site [chemical binding]; other site 1235461000246 Mg2+ binding site [ion binding]; other site 1235461000247 G-X-G motif; other site 1235461000248 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1235461000249 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461000250 ATP binding site [chemical binding]; other site 1235461000251 putative Mg++ binding site [ion binding]; other site 1235461000252 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461000253 nucleotide binding region [chemical binding]; other site 1235461000254 ATP-binding site [chemical binding]; other site 1235461000255 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1235461000256 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1235461000257 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461000258 Walker A/P-loop; other site 1235461000259 ATP binding site [chemical binding]; other site 1235461000260 Q-loop/lid; other site 1235461000261 ABC transporter signature motif; other site 1235461000262 Walker B; other site 1235461000263 D-loop; other site 1235461000264 H-loop/switch region; other site 1235461000265 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 1235461000266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461000267 dimer interface [polypeptide binding]; other site 1235461000268 conserved gate region; other site 1235461000269 putative PBP binding loops; other site 1235461000270 ABC-ATPase subunit interface; other site 1235461000271 hypothetical protein; Provisional; Region: PRK11622 1235461000272 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1235461000273 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1235461000274 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1235461000275 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 1235461000276 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1235461000277 homodimer interface [polypeptide binding]; other site 1235461000278 substrate-cofactor binding pocket; other site 1235461000279 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461000280 catalytic residue [active] 1235461000281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461000282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461000283 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1235461000284 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1235461000285 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1235461000286 HPP family; Region: HPP; pfam04982 1235461000287 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1235461000288 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1235461000289 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1235461000290 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1235461000291 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1235461000292 homodimer interface [polypeptide binding]; other site 1235461000293 NADP binding site [chemical binding]; other site 1235461000294 substrate binding site [chemical binding]; other site 1235461000295 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1235461000296 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1235461000297 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1235461000298 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461000299 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1235461000300 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1235461000301 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461000302 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461000303 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1235461000304 conserved cys residue [active] 1235461000305 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461000306 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 1235461000307 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 1235461000308 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 1235461000309 putative active site [active] 1235461000310 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 1235461000311 domain_subunit interface; other site 1235461000312 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1235461000313 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 1235461000314 active site 1235461000315 FMN binding site [chemical binding]; other site 1235461000316 substrate binding site [chemical binding]; other site 1235461000317 3Fe-4S cluster binding site [ion binding]; other site 1235461000318 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 1235461000319 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1235461000320 ethanolamine permease; Region: 2A0305; TIGR00908 1235461000321 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1235461000322 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461000323 non-specific DNA binding site [nucleotide binding]; other site 1235461000324 salt bridge; other site 1235461000325 sequence-specific DNA binding site [nucleotide binding]; other site 1235461000326 Cupin domain; Region: Cupin_2; pfam07883 1235461000327 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1235461000328 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1235461000329 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1235461000330 putative active site [active] 1235461000331 putative substrate binding site [chemical binding]; other site 1235461000332 putative cosubstrate binding site; other site 1235461000333 catalytic site [active] 1235461000334 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1235461000335 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461000336 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1235461000337 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1235461000338 FMN-binding pocket [chemical binding]; other site 1235461000339 flavin binding motif; other site 1235461000340 phosphate binding motif [ion binding]; other site 1235461000341 beta-alpha-beta structure motif; other site 1235461000342 NAD binding pocket [chemical binding]; other site 1235461000343 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461000344 catalytic loop [active] 1235461000345 iron binding site [ion binding]; other site 1235461000346 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 1235461000347 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1235461000348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461000349 Uncharacterized conserved protein [Function unknown]; Region: COG3665 1235461000350 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1235461000351 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461000352 Amino acid permease; Region: AA_permease_2; pfam13520 1235461000353 putative phosphoketolase; Provisional; Region: PRK05261 1235461000354 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1235461000355 TPP-binding site; other site 1235461000356 XFP C-terminal domain; Region: XFP_C; pfam09363 1235461000357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461000358 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1235461000359 NAD(P) binding site [chemical binding]; other site 1235461000360 active site 1235461000361 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 1235461000362 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461000363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461000364 DNA-binding site [nucleotide binding]; DNA binding site 1235461000365 FCD domain; Region: FCD; pfam07729 1235461000366 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1235461000367 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461000368 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1235461000369 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1235461000370 N-terminal domain interface [polypeptide binding]; other site 1235461000371 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461000372 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461000373 Walker A/P-loop; other site 1235461000374 ATP binding site [chemical binding]; other site 1235461000375 Q-loop/lid; other site 1235461000376 ABC transporter signature motif; other site 1235461000377 Walker B; other site 1235461000378 D-loop; other site 1235461000379 H-loop/switch region; other site 1235461000380 TOBE domain; Region: TOBE_2; pfam08402 1235461000381 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461000382 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461000383 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461000384 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461000385 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461000386 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461000387 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461000388 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461000389 dimer interface [polypeptide binding]; other site 1235461000390 conserved gate region; other site 1235461000391 putative PBP binding loops; other site 1235461000392 ABC-ATPase subunit interface; other site 1235461000393 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1235461000394 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461000395 dimer interface [polypeptide binding]; other site 1235461000396 conserved gate region; other site 1235461000397 putative PBP binding loops; other site 1235461000398 ABC-ATPase subunit interface; other site 1235461000399 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461000400 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461000401 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1235461000402 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461000403 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461000404 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461000405 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1235461000406 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1235461000407 metal binding site [ion binding]; metal-binding site 1235461000408 substrate binding pocket [chemical binding]; other site 1235461000409 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461000410 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1235461000411 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461000412 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461000413 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461000414 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461000415 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1235461000416 metal-binding site [ion binding] 1235461000417 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461000418 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1235461000419 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461000420 Walker A/P-loop; other site 1235461000421 ATP binding site [chemical binding]; other site 1235461000422 Q-loop/lid; other site 1235461000423 ABC transporter signature motif; other site 1235461000424 Walker B; other site 1235461000425 D-loop; other site 1235461000426 H-loop/switch region; other site 1235461000427 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461000428 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461000429 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461000430 TM-ABC transporter signature motif; other site 1235461000431 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461000432 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461000433 TM-ABC transporter signature motif; other site 1235461000434 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1235461000435 active site 1235461000436 catalytic motif [active] 1235461000437 Zn binding site [ion binding]; other site 1235461000438 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1235461000439 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 1235461000440 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1235461000441 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1235461000442 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1235461000443 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1235461000444 active site 1235461000445 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1235461000446 adenosine deaminase; Provisional; Region: PRK09358 1235461000447 active site 1235461000448 phosphopentomutase; Provisional; Region: PRK05362 1235461000449 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1235461000450 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1235461000451 TadE-like protein; Region: TadE; pfam07811 1235461000452 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1235461000453 TadE-like protein; Region: TadE; pfam07811 1235461000454 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1235461000455 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1235461000456 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1235461000457 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1235461000458 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1235461000459 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1235461000460 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1235461000461 BON domain; Region: BON; pfam04972 1235461000462 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1235461000463 Type IV pili component [Cell motility and secretion]; Region: COG5461 1235461000464 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 1235461000465 AAA domain; Region: AAA_31; pfam13614 1235461000466 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1235461000467 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1235461000468 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1235461000469 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1235461000470 ATP binding site [chemical binding]; other site 1235461000471 Walker A motif; other site 1235461000472 hexamer interface [polypeptide binding]; other site 1235461000473 Walker B motif; other site 1235461000474 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1235461000475 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1235461000476 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1235461000477 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1235461000478 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1235461000479 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1235461000480 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461000481 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 1235461000482 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461000483 TPR motif; other site 1235461000484 binding surface 1235461000485 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 1235461000486 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1235461000487 interface (dimer of trimers) [polypeptide binding]; other site 1235461000488 Substrate-binding/catalytic site; other site 1235461000489 Zn-binding sites [ion binding]; other site 1235461000490 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1235461000491 MarR family; Region: MarR; pfam01047 1235461000492 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1235461000493 NlpC/P60 family; Region: NLPC_P60; cl17555 1235461000494 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1235461000495 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1235461000496 putative ligand binding site [chemical binding]; other site 1235461000497 NAD binding site [chemical binding]; other site 1235461000498 dimerization interface [polypeptide binding]; other site 1235461000499 catalytic site [active] 1235461000500 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1235461000501 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461000502 Walker A/P-loop; other site 1235461000503 ATP binding site [chemical binding]; other site 1235461000504 Q-loop/lid; other site 1235461000505 ABC transporter signature motif; other site 1235461000506 Walker B; other site 1235461000507 D-loop; other site 1235461000508 H-loop/switch region; other site 1235461000509 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1235461000510 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461000511 Walker A/P-loop; other site 1235461000512 ATP binding site [chemical binding]; other site 1235461000513 Q-loop/lid; other site 1235461000514 ABC transporter signature motif; other site 1235461000515 Walker B; other site 1235461000516 D-loop; other site 1235461000517 H-loop/switch region; other site 1235461000518 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461000519 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1235461000520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461000521 dimer interface [polypeptide binding]; other site 1235461000522 conserved gate region; other site 1235461000523 putative PBP binding loops; other site 1235461000524 ABC-ATPase subunit interface; other site 1235461000525 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1235461000526 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461000527 dimer interface [polypeptide binding]; other site 1235461000528 conserved gate region; other site 1235461000529 putative PBP binding loops; other site 1235461000530 ABC-ATPase subunit interface; other site 1235461000531 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1235461000532 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1235461000533 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1235461000534 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1235461000535 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1235461000536 active site 1235461000537 dimer interfaces [polypeptide binding]; other site 1235461000538 catalytic residues [active] 1235461000539 glucokinase; Provisional; Region: glk; PRK00292 1235461000540 glucokinase, proteobacterial type; Region: glk; TIGR00749 1235461000541 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1235461000542 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461000543 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1235461000544 Walker A/P-loop; other site 1235461000545 ATP binding site [chemical binding]; other site 1235461000546 Q-loop/lid; other site 1235461000547 ABC transporter signature motif; other site 1235461000548 Walker B; other site 1235461000549 D-loop; other site 1235461000550 H-loop/switch region; other site 1235461000551 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1235461000552 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1235461000553 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1235461000554 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1235461000555 catalytic core [active] 1235461000556 Helix-turn-helix domain; Region: HTH_18; pfam12833 1235461000557 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1235461000558 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1235461000559 DNA binding site [nucleotide binding] 1235461000560 active site 1235461000561 Integral membrane protein [Function unknown]; Region: COG5488 1235461000562 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1235461000563 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1235461000564 minor groove reading motif; other site 1235461000565 helix-hairpin-helix signature motif; other site 1235461000566 substrate binding pocket [chemical binding]; other site 1235461000567 active site 1235461000568 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1235461000569 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461000570 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_22; cd08359 1235461000571 putative dimer interface [polypeptide binding]; other site 1235461000572 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461000573 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1235461000574 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461000575 substrate binding site [chemical binding]; other site 1235461000576 ATP binding site [chemical binding]; other site 1235461000577 Predicted kinase [General function prediction only]; Region: COG0645 1235461000578 AAA domain; Region: AAA_17; pfam13207 1235461000579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1235461000580 Bacterial SH3 domain; Region: SH3_4; pfam06347 1235461000581 Bacterial SH3 domain; Region: SH3_4; pfam06347 1235461000582 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1235461000583 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1235461000584 dimerization interface [polypeptide binding]; other site 1235461000585 ligand binding site [chemical binding]; other site 1235461000586 NADP binding site [chemical binding]; other site 1235461000587 catalytic site [active] 1235461000588 5'-3' exonuclease; Region: 53EXOc; smart00475 1235461000589 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1235461000590 active site 1235461000591 metal binding site 1 [ion binding]; metal-binding site 1235461000592 putative 5' ssDNA interaction site; other site 1235461000593 metal binding site 3; metal-binding site 1235461000594 metal binding site 2 [ion binding]; metal-binding site 1235461000595 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1235461000596 putative DNA binding site [nucleotide binding]; other site 1235461000597 putative metal binding site [ion binding]; other site 1235461000598 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 1235461000599 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1235461000600 active site 1235461000601 catalytic site [active] 1235461000602 substrate binding site [chemical binding]; other site 1235461000603 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1235461000604 active site 1235461000605 DNA binding site [nucleotide binding] 1235461000606 catalytic site [active] 1235461000607 MarR family; Region: MarR; pfam01047 1235461000608 hypothetical protein; Validated; Region: PRK09104 1235461000609 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1235461000610 metal binding site [ion binding]; metal-binding site 1235461000611 putative dimer interface [polypeptide binding]; other site 1235461000612 Predicted integral membrane protein [Function unknown]; Region: COG0392 1235461000613 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461000614 EamA-like transporter family; Region: EamA; pfam00892 1235461000615 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1235461000616 Transglycosylase; Region: Transgly; pfam00912 1235461000617 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1235461000618 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1235461000619 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1235461000620 nucleotide binding site [chemical binding]; other site 1235461000621 NEF interaction site [polypeptide binding]; other site 1235461000622 SBD interface [polypeptide binding]; other site 1235461000623 chaperone protein DnaJ; Provisional; Region: PRK10767 1235461000624 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1235461000625 HSP70 interaction site [polypeptide binding]; other site 1235461000626 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1235461000627 substrate binding site [polypeptide binding]; other site 1235461000628 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1235461000629 Zn binding sites [ion binding]; other site 1235461000630 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1235461000631 dimer interface [polypeptide binding]; other site 1235461000632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461000633 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461000634 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461000635 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 1235461000636 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1235461000637 Uncharacterized conserved protein [Function unknown]; Region: COG5588 1235461000638 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1235461000639 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1235461000640 recombination protein F; Reviewed; Region: recF; PRK00064 1235461000641 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1235461000642 Walker A/P-loop; other site 1235461000643 ATP binding site [chemical binding]; other site 1235461000644 Q-loop/lid; other site 1235461000645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461000646 ABC transporter signature motif; other site 1235461000647 Walker B; other site 1235461000648 D-loop; other site 1235461000649 H-loop/switch region; other site 1235461000650 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1235461000651 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1235461000652 ATP binding site [chemical binding]; other site 1235461000653 substrate interface [chemical binding]; other site 1235461000654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461000655 Coenzyme A binding pocket [chemical binding]; other site 1235461000656 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461000657 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1235461000658 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1235461000659 Protein export membrane protein; Region: SecD_SecF; cl14618 1235461000660 Protein export membrane protein; Region: SecD_SecF; cl14618 1235461000661 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1235461000662 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461000663 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461000664 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461000665 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461000666 Walker A/P-loop; other site 1235461000667 ATP binding site [chemical binding]; other site 1235461000668 Q-loop/lid; other site 1235461000669 ABC transporter signature motif; other site 1235461000670 Walker B; other site 1235461000671 D-loop; other site 1235461000672 H-loop/switch region; other site 1235461000673 TOBE domain; Region: TOBE_2; pfam08402 1235461000674 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461000675 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461000676 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461000677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461000678 dimer interface [polypeptide binding]; other site 1235461000679 conserved gate region; other site 1235461000680 putative PBP binding loops; other site 1235461000681 ABC-ATPase subunit interface; other site 1235461000682 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461000683 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461000684 dimer interface [polypeptide binding]; other site 1235461000685 conserved gate region; other site 1235461000686 putative PBP binding loops; other site 1235461000687 ABC-ATPase subunit interface; other site 1235461000688 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461000689 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461000690 Predicted sugar phosphate isomerase [General function prediction only]; Region: COG2103 1235461000691 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1235461000692 putative active site [active] 1235461000693 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1235461000694 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1235461000695 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461000696 DNA-binding site [nucleotide binding]; DNA binding site 1235461000697 UTRA domain; Region: UTRA; pfam07702 1235461000698 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1235461000699 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1235461000700 dimer interface [polypeptide binding]; other site 1235461000701 active site 1235461000702 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1235461000703 dimer interface [polypeptide binding]; other site 1235461000704 active site 1235461000705 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1235461000706 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1235461000707 active site 1235461000708 dimer interface [polypeptide binding]; other site 1235461000709 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1235461000710 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1235461000711 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461000712 hypothetical protein; Provisional; Region: PRK06102 1235461000713 Amidase; Region: Amidase; cl11426 1235461000714 CysZ-like protein; Reviewed; Region: PRK12768 1235461000715 hypothetical protein; Provisional; Region: PRK00736 1235461000716 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1235461000717 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1235461000718 ligand binding site [chemical binding]; other site 1235461000719 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1235461000720 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1235461000721 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461000722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461000723 hypothetical protein; Provisional; Region: PRK07588 1235461000724 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1235461000725 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461000726 putative substrate translocation pore; other site 1235461000727 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461000728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461000729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461000730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461000731 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 1235461000732 putative substrate binding pocket [chemical binding]; other site 1235461000733 putative dimerization interface [polypeptide binding]; other site 1235461000734 Predicted permeases [General function prediction only]; Region: COG0679 1235461000735 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1235461000736 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1235461000737 homodimer interface [polypeptide binding]; other site 1235461000738 substrate-cofactor binding pocket; other site 1235461000739 catalytic residue [active] 1235461000740 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1235461000741 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1235461000742 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1235461000743 Ligand binding site; other site 1235461000744 oligomer interface; other site 1235461000745 prephenate dehydratase; Provisional; Region: PRK11899 1235461000746 Prephenate dehydratase; Region: PDT; pfam00800 1235461000747 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1235461000748 putative L-Phe binding site [chemical binding]; other site 1235461000749 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1235461000750 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_11; cd07261 1235461000751 putative dimer interface [polypeptide binding]; other site 1235461000752 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461000753 Predicted transcriptional regulator [Transcription]; Region: COG2378 1235461000754 HTH domain; Region: HTH_11; pfam08279 1235461000755 WYL domain; Region: WYL; pfam13280 1235461000756 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1235461000757 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1235461000758 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1235461000759 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1235461000760 putative NADH binding site [chemical binding]; other site 1235461000761 putative active site [active] 1235461000762 nudix motif; other site 1235461000763 putative metal binding site [ion binding]; other site 1235461000764 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1235461000765 nucleotide binding site/active site [active] 1235461000766 HIT family signature motif; other site 1235461000767 catalytic residue [active] 1235461000768 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1235461000769 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461000770 Walker A motif; other site 1235461000771 ATP binding site [chemical binding]; other site 1235461000772 Walker B motif; other site 1235461000773 arginine finger; other site 1235461000774 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1235461000775 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1235461000776 hypothetical protein; Validated; Region: PRK00153 1235461000777 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461000778 recombination protein RecR; Reviewed; Region: recR; PRK00076 1235461000779 RecR protein; Region: RecR; pfam02132 1235461000780 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1235461000781 putative active site [active] 1235461000782 putative metal-binding site [ion binding]; other site 1235461000783 tetramer interface [polypeptide binding]; other site 1235461000784 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1235461000785 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461000786 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461000787 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461000788 Transmembrane secretion effector; Region: MFS_3; pfam05977 1235461000789 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461000790 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461000791 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1235461000792 Sm and related proteins; Region: Sm_like; cl00259 1235461000793 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1235461000794 putative oligomer interface [polypeptide binding]; other site 1235461000795 putative RNA binding site [nucleotide binding]; other site 1235461000796 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1235461000797 NusA N-terminal domain; Region: NusA_N; pfam08529 1235461000798 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 1235461000799 RNA binding site [nucleotide binding]; other site 1235461000800 homodimer interface [polypeptide binding]; other site 1235461000801 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 1235461000802 G-X-X-G motif; other site 1235461000803 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 1235461000804 G-X-X-G motif; other site 1235461000805 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1235461000806 hypothetical protein; Provisional; Region: PRK09190 1235461000807 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 1235461000808 putative RNA binding cleft [nucleotide binding]; other site 1235461000809 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1235461000810 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1235461000811 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1235461000812 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1235461000813 G1 box; other site 1235461000814 putative GEF interaction site [polypeptide binding]; other site 1235461000815 GTP/Mg2+ binding site [chemical binding]; other site 1235461000816 Switch I region; other site 1235461000817 G2 box; other site 1235461000818 G3 box; other site 1235461000819 Switch II region; other site 1235461000820 G4 box; other site 1235461000821 G5 box; other site 1235461000822 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1235461000823 Translation-initiation factor 2; Region: IF-2; pfam11987 1235461000824 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1235461000825 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1235461000826 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1235461000827 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1235461000828 RNA binding site [nucleotide binding]; other site 1235461000829 active site 1235461000830 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1235461000831 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1235461000832 HWE histidine kinase; Region: HWE_HK; pfam07536 1235461000833 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 1235461000834 16S/18S rRNA binding site [nucleotide binding]; other site 1235461000835 S13e-L30e interaction site [polypeptide binding]; other site 1235461000836 25S rRNA binding site [nucleotide binding]; other site 1235461000837 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1235461000838 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1235461000839 RNase E interface [polypeptide binding]; other site 1235461000840 trimer interface [polypeptide binding]; other site 1235461000841 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1235461000842 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1235461000843 RNase E interface [polypeptide binding]; other site 1235461000844 trimer interface [polypeptide binding]; other site 1235461000845 active site 1235461000846 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1235461000847 putative nucleic acid binding region [nucleotide binding]; other site 1235461000848 G-X-X-G motif; other site 1235461000849 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1235461000850 RNA binding site [nucleotide binding]; other site 1235461000851 domain interface; other site 1235461000852 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1235461000853 Methyltransferase small domain; Region: MTS; pfam05175 1235461000854 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 1235461000855 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1235461000856 NAD binding site [chemical binding]; other site 1235461000857 homotetramer interface [polypeptide binding]; other site 1235461000858 homodimer interface [polypeptide binding]; other site 1235461000859 substrate binding site [chemical binding]; other site 1235461000860 active site 1235461000861 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1235461000862 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1235461000863 dimer interface [polypeptide binding]; other site 1235461000864 active site 1235461000865 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1235461000866 active site 1 [active] 1235461000867 dimer interface [polypeptide binding]; other site 1235461000868 active site 2 [active] 1235461000869 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1235461000870 metal binding site 2 [ion binding]; metal-binding site 1235461000871 putative DNA binding helix; other site 1235461000872 metal binding site 1 [ion binding]; metal-binding site 1235461000873 dimer interface [polypeptide binding]; other site 1235461000874 Predicted membrane protein [Function unknown]; Region: COG2860 1235461000875 UPF0126 domain; Region: UPF0126; pfam03458 1235461000876 UPF0126 domain; Region: UPF0126; pfam03458 1235461000877 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1235461000878 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1235461000879 putative active site [active] 1235461000880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 1235461000881 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1235461000882 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1235461000883 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1235461000884 hinge; other site 1235461000885 active site 1235461000886 cytidylate kinase; Provisional; Region: cmk; PRK00023 1235461000887 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1235461000888 CMP-binding site; other site 1235461000889 The sites determining sugar specificity; other site 1235461000890 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1235461000891 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1235461000892 RNA binding site [nucleotide binding]; other site 1235461000893 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1235461000894 RNA binding site [nucleotide binding]; other site 1235461000895 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1235461000896 RNA binding site [nucleotide binding]; other site 1235461000897 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1235461000898 RNA binding site [nucleotide binding]; other site 1235461000899 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1235461000900 RNA binding site [nucleotide binding]; other site 1235461000901 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1235461000902 RNA binding site [nucleotide binding]; other site 1235461000903 BA14K-like protein; Region: BA14K; pfam07886 1235461000904 Cache domain; Region: Cache_1; pfam02743 1235461000905 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1235461000906 dimerization interface [polypeptide binding]; other site 1235461000907 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461000908 cyclase homology domain; Region: CHD; cd07302 1235461000909 nucleotidyl binding site; other site 1235461000910 metal binding site [ion binding]; metal-binding site 1235461000911 dimer interface [polypeptide binding]; other site 1235461000912 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1235461000913 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 1235461000914 putative ligand binding site [chemical binding]; other site 1235461000915 putative NAD binding site [chemical binding]; other site 1235461000916 catalytic site [active] 1235461000917 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1235461000918 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1235461000919 catalytic site [active] 1235461000920 putative active site [active] 1235461000921 putative substrate binding site [chemical binding]; other site 1235461000922 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 1235461000923 GIY-YIG motif/motif A; other site 1235461000924 putative active site [active] 1235461000925 putative metal binding site [ion binding]; other site 1235461000926 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 1235461000927 Predicted membrane protein [Function unknown]; Region: COG2259 1235461000928 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1235461000929 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1235461000930 Post-segregation antitoxin (ccd killing mechanism protein) encoded by the F plasmid [General function prediction only]; Region: COG5302 1235461000931 GTP-binding protein LepA; Provisional; Region: PRK05433 1235461000932 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1235461000933 G1 box; other site 1235461000934 putative GEF interaction site [polypeptide binding]; other site 1235461000935 GTP/Mg2+ binding site [chemical binding]; other site 1235461000936 Switch I region; other site 1235461000937 G2 box; other site 1235461000938 G3 box; other site 1235461000939 Switch II region; other site 1235461000940 G4 box; other site 1235461000941 G5 box; other site 1235461000942 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1235461000943 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 1235461000944 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1235461000945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461000946 putative substrate translocation pore; other site 1235461000947 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461000948 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461000949 sequence-specific DNA binding site [nucleotide binding]; other site 1235461000950 salt bridge; other site 1235461000951 Cupin domain; Region: Cupin_2; pfam07883 1235461000952 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461000953 Coenzyme A binding pocket [chemical binding]; other site 1235461000954 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 1235461000955 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1235461000956 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1235461000957 ligand binding site [chemical binding]; other site 1235461000958 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1235461000959 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461000960 FeS/SAM binding site; other site 1235461000961 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 1235461000962 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1235461000963 motif 1; other site 1235461000964 dimer interface [polypeptide binding]; other site 1235461000965 active site 1235461000966 motif 2; other site 1235461000967 motif 3; other site 1235461000968 elongation factor P; Validated; Region: PRK00529 1235461000969 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1235461000970 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1235461000971 RNA binding site [nucleotide binding]; other site 1235461000972 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1235461000973 RNA binding site [nucleotide binding]; other site 1235461000974 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1235461000975 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1235461000976 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461000977 S-adenosylmethionine binding site [chemical binding]; other site 1235461000978 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1235461000979 diiron binding motif [ion binding]; other site 1235461000980 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1235461000981 CCC1-related protein family; Region: CCC1_like_1; cd02437 1235461000982 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1235461000983 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461000984 Long range pseudoknot; C770_GR4Chr0291 1235461000985 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1235461000986 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1235461000987 23S rRNA binding site [nucleotide binding]; other site 1235461000988 L21 binding site [polypeptide binding]; other site 1235461000989 L13 binding site [polypeptide binding]; other site 1235461000990 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1235461000991 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1235461000992 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 1235461000993 dimer interface [polypeptide binding]; other site 1235461000994 motif 1; other site 1235461000995 active site 1235461000996 motif 2; other site 1235461000997 motif 3; other site 1235461000998 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1235461000999 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1235461001000 putative tRNA-binding site [nucleotide binding]; other site 1235461001001 B3/4 domain; Region: B3_4; pfam03483 1235461001002 tRNA synthetase B5 domain; Region: B5; smart00874 1235461001003 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 1235461001004 dimer interface [polypeptide binding]; other site 1235461001005 motif 1; other site 1235461001006 motif 3; other site 1235461001007 motif 2; other site 1235461001008 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1235461001009 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1235461001010 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461001011 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461001012 active site 1235461001013 catalytic tetrad [active] 1235461001014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461001015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461001016 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461001017 putative effector binding pocket; other site 1235461001018 putative dimerization interface [polypeptide binding]; other site 1235461001019 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 1235461001020 dimerization interface [polypeptide binding]; other site 1235461001021 metal binding site [ion binding]; metal-binding site 1235461001022 short chain dehydrogenase; Provisional; Region: PRK07478 1235461001023 classical (c) SDRs; Region: SDR_c; cd05233 1235461001024 NAD(P) binding site [chemical binding]; other site 1235461001025 active site 1235461001026 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461001027 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461001028 active site 1235461001029 catalytic tetrad [active] 1235461001030 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461001031 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461001032 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461001033 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461001034 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461001035 sequence-specific DNA binding site [nucleotide binding]; other site 1235461001036 salt bridge; other site 1235461001037 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1235461001038 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1235461001039 generic binding surface II; other site 1235461001040 generic binding surface I; other site 1235461001041 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1235461001042 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461001043 MarR family; Region: MarR_2; cl17246 1235461001044 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461001045 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1235461001046 EamA-like transporter family; Region: EamA; pfam00892 1235461001047 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1235461001048 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1235461001049 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461001050 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1235461001051 C-terminal domain interface [polypeptide binding]; other site 1235461001052 GSH binding site (G-site) [chemical binding]; other site 1235461001053 dimer interface [polypeptide binding]; other site 1235461001054 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1235461001055 N-terminal domain interface [polypeptide binding]; other site 1235461001056 dimer interface [polypeptide binding]; other site 1235461001057 substrate binding pocket (H-site) [chemical binding]; other site 1235461001058 MarR family; Region: MarR_2; pfam12802 1235461001059 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1235461001060 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1235461001061 putative deacylase active site [active] 1235461001062 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1235461001063 ArsC family; Region: ArsC; pfam03960 1235461001064 putative catalytic residues [active] 1235461001065 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1235461001066 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461001067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461001068 homodimer interface [polypeptide binding]; other site 1235461001069 catalytic residue [active] 1235461001070 Predicted deacylase [General function prediction only]; Region: COG3608 1235461001071 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1235461001072 active site 1235461001073 Zn binding site [ion binding]; other site 1235461001074 VirB8 protein; Region: VirB8; cl01500 1235461001075 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1235461001076 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 1235461001077 putative active site [active] 1235461001078 GMP synthase; Reviewed; Region: guaA; PRK00074 1235461001079 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1235461001080 AMP/PPi binding site [chemical binding]; other site 1235461001081 candidate oxyanion hole; other site 1235461001082 catalytic triad [active] 1235461001083 potential glutamine specificity residues [chemical binding]; other site 1235461001084 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1235461001085 ATP Binding subdomain [chemical binding]; other site 1235461001086 Ligand Binding sites [chemical binding]; other site 1235461001087 Dimerization subdomain; other site 1235461001088 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 1235461001089 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 1235461001090 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1235461001091 CoenzymeA binding site [chemical binding]; other site 1235461001092 subunit interaction site [polypeptide binding]; other site 1235461001093 PHB binding site; other site 1235461001094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1235461001095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461001096 Coenzyme A binding pocket [chemical binding]; other site 1235461001097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 1235461001098 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1235461001099 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1235461001100 Cl binding site [ion binding]; other site 1235461001101 oligomer interface [polypeptide binding]; other site 1235461001102 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG3489 1235461001103 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1235461001104 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1235461001105 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 1235461001106 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1235461001107 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461001108 S-adenosylmethionine binding site [chemical binding]; other site 1235461001109 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1235461001110 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1235461001111 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461001112 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1235461001113 putative NAD(P) binding site [chemical binding]; other site 1235461001114 epoxyqueuosine reductase; Region: TIGR00276 1235461001115 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1235461001116 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461001117 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1235461001118 C-terminal domain interface [polypeptide binding]; other site 1235461001119 GSH binding site (G-site) [chemical binding]; other site 1235461001120 dimer interface [polypeptide binding]; other site 1235461001121 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1235461001122 N-terminal domain interface [polypeptide binding]; other site 1235461001123 dimer interface [polypeptide binding]; other site 1235461001124 substrate binding pocket (H-site) [chemical binding]; other site 1235461001125 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 1235461001126 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1235461001127 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1235461001128 putative NAD(P) binding site [chemical binding]; other site 1235461001129 active site 1235461001130 Uncharacterized conserved protein [Function unknown]; Region: COG5470 1235461001131 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1235461001132 active site 1235461001133 dimer interface [polypeptide binding]; other site 1235461001134 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1235461001135 catalytic core [active] 1235461001136 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1235461001137 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461001138 S-adenosylmethionine binding site [chemical binding]; other site 1235461001139 DNA polymerase III subunit beta; Validated; Region: PRK05643 1235461001140 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 1235461001141 putative DNA binding surface [nucleotide binding]; other site 1235461001142 dimer interface [polypeptide binding]; other site 1235461001143 beta-clamp/clamp loader binding surface; other site 1235461001144 beta-clamp/translesion DNA polymerase binding surface; other site 1235461001145 Predicted methyltransferases [General function prediction only]; Region: COG0313 1235461001146 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1235461001147 putative SAM binding site [chemical binding]; other site 1235461001148 putative homodimer interface [polypeptide binding]; other site 1235461001149 hypothetical protein; Reviewed; Region: PRK12497 1235461001150 glutathione synthetase; Provisional; Region: PRK05246 1235461001151 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1235461001152 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1235461001153 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1235461001154 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1235461001155 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461001156 Walker A motif; other site 1235461001157 ATP binding site [chemical binding]; other site 1235461001158 Walker B motif; other site 1235461001159 arginine finger; other site 1235461001160 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1235461001161 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1235461001162 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1235461001163 dimer interface [polypeptide binding]; other site 1235461001164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461001165 catalytic residue [active] 1235461001166 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461001167 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461001168 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1235461001169 EamA-like transporter family; Region: EamA; pfam00892 1235461001170 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461001171 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461001172 putative DNA binding site [nucleotide binding]; other site 1235461001173 putative Zn2+ binding site [ion binding]; other site 1235461001174 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461001175 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1235461001176 trimer interface [polypeptide binding]; other site 1235461001177 active site 1235461001178 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1235461001179 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1235461001180 G1 box; other site 1235461001181 putative GEF interaction site [polypeptide binding]; other site 1235461001182 GTP/Mg2+ binding site [chemical binding]; other site 1235461001183 Switch I region; other site 1235461001184 G2 box; other site 1235461001185 G3 box; other site 1235461001186 Switch II region; other site 1235461001187 G4 box; other site 1235461001188 G5 box; other site 1235461001189 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1235461001190 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461001191 EamA-like transporter family; Region: EamA; pfam00892 1235461001192 EamA-like transporter family; Region: EamA; pfam00892 1235461001193 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1235461001194 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461001195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461001196 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461001197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461001198 NAD(P) binding site [chemical binding]; other site 1235461001199 active site 1235461001200 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461001201 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1235461001202 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461001203 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1235461001204 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1235461001205 dimer interface [polypeptide binding]; other site 1235461001206 PYR/PP interface [polypeptide binding]; other site 1235461001207 TPP binding site [chemical binding]; other site 1235461001208 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1235461001209 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1235461001210 TPP-binding site [chemical binding]; other site 1235461001211 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461001212 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1235461001213 substrate binding site [chemical binding]; other site 1235461001214 ATP binding site [chemical binding]; other site 1235461001215 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1235461001216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1235461001217 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1235461001218 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461001219 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1235461001220 putative active site [active] 1235461001221 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461001222 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461001223 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461001224 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1235461001225 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1235461001226 putative active site [active] 1235461001227 putative dimer interface [polypeptide binding]; other site 1235461001228 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1235461001229 Flavoprotein; Region: Flavoprotein; pfam02441 1235461001230 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1235461001231 Predicted transcriptional regulator [Transcription]; Region: COG1959 1235461001232 Transcriptional regulator; Region: Rrf2; pfam02082 1235461001233 Transcriptional regulator; Region: Rrf2; cl17282 1235461001234 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1235461001235 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1235461001236 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1235461001237 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1235461001238 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1235461001239 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461001240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461001241 NAD(P) binding site [chemical binding]; other site 1235461001242 active site 1235461001243 ABC1 family; Region: ABC1; cl17513 1235461001244 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1235461001245 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1235461001246 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461001247 S-adenosylmethionine binding site [chemical binding]; other site 1235461001248 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1235461001249 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1235461001250 DNA binding site [nucleotide binding] 1235461001251 catalytic residue [active] 1235461001252 H2TH interface [polypeptide binding]; other site 1235461001253 putative catalytic residues [active] 1235461001254 turnover-facilitating residue; other site 1235461001255 intercalation triad [nucleotide binding]; other site 1235461001256 8OG recognition residue [nucleotide binding]; other site 1235461001257 putative reading head residues; other site 1235461001258 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1235461001259 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1235461001260 enoyl-CoA hydratase; Provisional; Region: PRK05862 1235461001261 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461001262 substrate binding site [chemical binding]; other site 1235461001263 oxyanion hole (OAH) forming residues; other site 1235461001264 trimer interface [polypeptide binding]; other site 1235461001265 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1235461001266 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1235461001267 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1235461001268 Bacterial dnaA protein; Region: Bac_DnaA; pfam00308 1235461001269 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 1235461001270 DnaA box-binding interface [nucleotide binding]; other site 1235461001271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1235461001272 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1235461001273 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461001274 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1235461001275 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1235461001276 putative hydrophobic ligand binding site [chemical binding]; other site 1235461001277 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1235461001278 SnoaL-like domain; Region: SnoaL_3; pfam13474 1235461001279 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 1235461001280 putative dimer interface [polypeptide binding]; other site 1235461001281 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461001282 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1235461001283 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461001284 FeS/SAM binding site; other site 1235461001285 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 1235461001286 active site 1235461001287 dimerization interface [polypeptide binding]; other site 1235461001288 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1235461001289 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461001290 active site 1235461001291 ribonuclease PH; Reviewed; Region: rph; PRK00173 1235461001292 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1235461001293 hexamer interface [polypeptide binding]; other site 1235461001294 active site 1235461001295 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1235461001296 heat shock protein GrpE; Provisional; Region: PRK14141 1235461001297 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 1235461001298 dimer interface [polypeptide binding]; other site 1235461001299 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1235461001300 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1235461001301 active site 1235461001302 phosphorylation site [posttranslational modification] 1235461001303 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1235461001304 30S subunit binding site; other site 1235461001305 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1235461001306 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1235461001307 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1235461001308 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1235461001309 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1235461001310 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1235461001311 Walker A/P-loop; other site 1235461001312 ATP binding site [chemical binding]; other site 1235461001313 Q-loop/lid; other site 1235461001314 ABC transporter signature motif; other site 1235461001315 Walker B; other site 1235461001316 D-loop; other site 1235461001317 H-loop/switch region; other site 1235461001318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 1235461001319 OstA-like protein; Region: OstA; pfam03968 1235461001320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1235461001321 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1235461001322 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1235461001323 tandem repeat interface [polypeptide binding]; other site 1235461001324 oligomer interface [polypeptide binding]; other site 1235461001325 active site residues [active] 1235461001326 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1235461001327 IHF dimer interface [polypeptide binding]; other site 1235461001328 IHF - DNA interface [nucleotide binding]; other site 1235461001329 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1235461001330 putative hydrophobic ligand binding site [chemical binding]; other site 1235461001331 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1235461001332 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461001333 S-adenosylmethionine binding site [chemical binding]; other site 1235461001334 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1235461001335 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1235461001336 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1235461001337 lipoprotein signal peptidase; Provisional; Region: PRK14795 1235461001338 PAS domain; Region: PAS_9; pfam13426 1235461001339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461001340 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461001341 dimer interface [polypeptide binding]; other site 1235461001342 phosphorylation site [posttranslational modification] 1235461001343 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461001344 ATP binding site [chemical binding]; other site 1235461001345 Mg2+ binding site [ion binding]; other site 1235461001346 G-X-G motif; other site 1235461001347 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461001348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461001349 active site 1235461001350 phosphorylation site [posttranslational modification] 1235461001351 intermolecular recognition site; other site 1235461001352 dimerization interface [polypeptide binding]; other site 1235461001353 Putative hemolysin [General function prediction only]; Region: COG3176 1235461001354 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1235461001355 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1235461001356 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1235461001357 putative NAD(P) binding site [chemical binding]; other site 1235461001358 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1235461001359 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1235461001360 MutS domain I; Region: MutS_I; pfam01624 1235461001361 MutS domain II; Region: MutS_II; pfam05188 1235461001362 MutS domain III; Region: MutS_III; pfam05192 1235461001363 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1235461001364 Walker A/P-loop; other site 1235461001365 ATP binding site [chemical binding]; other site 1235461001366 Q-loop/lid; other site 1235461001367 ABC transporter signature motif; other site 1235461001368 Walker B; other site 1235461001369 D-loop; other site 1235461001370 H-loop/switch region; other site 1235461001371 PII uridylyl-transferase; Provisional; Region: PRK05092 1235461001372 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1235461001373 metal binding triad; other site 1235461001374 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1235461001375 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1235461001376 Zn2+ binding site [ion binding]; other site 1235461001377 Mg2+ binding site [ion binding]; other site 1235461001378 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1235461001379 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1235461001380 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1235461001381 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1235461001382 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461001383 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1235461001384 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1235461001385 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1235461001386 active site 1235461001387 HIGH motif; other site 1235461001388 dimer interface [polypeptide binding]; other site 1235461001389 KMSKS motif; other site 1235461001390 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1235461001391 Ligand Binding Site [chemical binding]; other site 1235461001392 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1235461001393 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1235461001394 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1235461001395 Glycoprotease family; Region: Peptidase_M22; pfam00814 1235461001396 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1235461001397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461001398 Coenzyme A binding pocket [chemical binding]; other site 1235461001399 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1235461001400 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1235461001401 putative acyl-acceptor binding pocket; other site 1235461001402 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1235461001403 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1235461001404 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461001405 FeS/SAM binding site; other site 1235461001406 TRAM domain; Region: TRAM; pfam01938 1235461001407 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1235461001408 PhoH-like protein; Region: PhoH; pfam02562 1235461001409 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1235461001410 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1235461001411 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1235461001412 Transporter associated domain; Region: CorC_HlyC; smart01091 1235461001413 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1235461001414 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1235461001415 putative active site [active] 1235461001416 catalytic triad [active] 1235461001417 putative dimer interface [polypeptide binding]; other site 1235461001418 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461001419 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461001420 non-specific DNA binding site [nucleotide binding]; other site 1235461001421 salt bridge; other site 1235461001422 sequence-specific DNA binding site [nucleotide binding]; other site 1235461001423 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1235461001424 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1235461001425 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1235461001426 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1235461001427 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1235461001428 Uncharacterized small protein [Function unknown]; Region: COG5568 1235461001429 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1235461001430 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1235461001431 putative dimer interface [polypeptide binding]; other site 1235461001432 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1235461001433 active site 1235461001434 tetramer interface [polypeptide binding]; other site 1235461001435 Cache domain; Region: Cache_1; pfam02743 1235461001436 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1235461001437 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1235461001438 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1235461001439 dimer interface [polypeptide binding]; other site 1235461001440 putative CheW interface [polypeptide binding]; other site 1235461001441 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461001442 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1235461001443 substrate binding site [chemical binding]; other site 1235461001444 dimer interface [polypeptide binding]; other site 1235461001445 ATP binding site [chemical binding]; other site 1235461001446 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1235461001447 RmuC family; Region: RmuC; pfam02646 1235461001448 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1235461001449 active site 1235461001450 catalytic residues [active] 1235461001451 metal binding site [ion binding]; metal-binding site 1235461001452 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1235461001453 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1235461001454 putative active site [active] 1235461001455 substrate binding site [chemical binding]; other site 1235461001456 putative cosubstrate binding site; other site 1235461001457 catalytic site [active] 1235461001458 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1235461001459 substrate binding site [chemical binding]; other site 1235461001460 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1235461001461 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1235461001462 dimerization interface 3.5A [polypeptide binding]; other site 1235461001463 active site 1235461001464 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461001465 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461001466 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461001467 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1235461001468 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1235461001469 metal binding site [ion binding]; metal-binding site 1235461001470 dimer interface [polypeptide binding]; other site 1235461001471 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1235461001472 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461001473 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461001474 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461001475 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1235461001476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461001477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461001478 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1235461001479 putative effector binding pocket; other site 1235461001480 putative dimerization interface [polypeptide binding]; other site 1235461001481 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1235461001482 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1235461001483 ATP binding site [chemical binding]; other site 1235461001484 putative Mg++ binding site [ion binding]; other site 1235461001485 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461001486 nucleotide binding region [chemical binding]; other site 1235461001487 ATP-binding site [chemical binding]; other site 1235461001488 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1235461001489 RNA binding site [nucleotide binding]; other site 1235461001490 Predicted membrane protein [Function unknown]; Region: COG3152 1235461001491 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1235461001492 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1235461001493 trimer interface [polypeptide binding]; other site 1235461001494 active site 1235461001495 substrate binding site [chemical binding]; other site 1235461001496 CoA binding site [chemical binding]; other site 1235461001497 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1235461001498 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1235461001499 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1235461001500 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1235461001501 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1235461001502 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1235461001503 DNA binding site [nucleotide binding] 1235461001504 active site 1235461001505 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1235461001506 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1235461001507 tetramer interface [polypeptide binding]; other site 1235461001508 active site 1235461001509 Mg2+/Mn2+ binding site [ion binding]; other site 1235461001510 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1235461001511 homohexameric interface [polypeptide binding]; other site 1235461001512 feedback inhibition sensing region; other site 1235461001513 carbamate kinase; Reviewed; Region: PRK12686 1235461001514 nucleotide binding site [chemical binding]; other site 1235461001515 N-acetyl-L-glutamate binding site [chemical binding]; other site 1235461001516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1235461001517 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1235461001518 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1235461001519 SelR domain; Region: SelR; pfam01641 1235461001520 Predicted membrane protein [Function unknown]; Region: COG4803 1235461001521 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1235461001522 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1235461001523 G1 box; other site 1235461001524 GTP/Mg2+ binding site [chemical binding]; other site 1235461001525 Switch I region; other site 1235461001526 G2 box; other site 1235461001527 G3 box; other site 1235461001528 Switch II region; other site 1235461001529 G4 box; other site 1235461001530 G5 box; other site 1235461001531 membrane protein insertase; Provisional; Region: PRK01318 1235461001532 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1235461001533 ribonuclease P; Reviewed; Region: rnpA; PRK01313 1235461001534 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461001535 dimerization interface [polypeptide binding]; other site 1235461001536 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1235461001537 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1235461001538 dimer interface [polypeptide binding]; other site 1235461001539 putative CheW interface [polypeptide binding]; other site 1235461001540 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1235461001541 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1235461001542 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1235461001543 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461001544 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461001545 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1235461001546 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461001547 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461001548 ATP binding site [chemical binding]; other site 1235461001549 Mg2+ binding site [ion binding]; other site 1235461001550 G-X-G motif; other site 1235461001551 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1235461001552 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461001553 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1235461001554 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461001555 homotrimer interaction site [polypeptide binding]; other site 1235461001556 putative active site [active] 1235461001557 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1235461001558 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1235461001559 phosphate binding site [ion binding]; other site 1235461001560 Domain of unknown function DUF11; Region: DUF11; cl17728 1235461001561 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1235461001562 Domain of unknown function DUF11; Region: DUF11; cl17728 1235461001563 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1235461001564 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1235461001565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 1235461001566 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1235461001567 trimer interface [polypeptide binding]; other site 1235461001568 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1235461001569 trimer interface [polypeptide binding]; other site 1235461001570 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1235461001571 trimer interface [polypeptide binding]; other site 1235461001572 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1235461001573 trimer interface [polypeptide binding]; other site 1235461001574 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1235461001575 trimer interface [polypeptide binding]; other site 1235461001576 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1235461001577 Haemagglutinin; Region: HIM; pfam05662 1235461001578 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 1235461001579 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1235461001580 putative deacylase active site [active] 1235461001581 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1235461001582 Uncharacterized conserved protein [Function unknown]; Region: COG5579 1235461001583 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461001584 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461001585 active site 1235461001586 catalytic tetrad [active] 1235461001587 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1235461001588 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1235461001589 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1235461001590 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1235461001591 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1235461001592 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1235461001593 Glutamate binding site [chemical binding]; other site 1235461001594 NAD binding site [chemical binding]; other site 1235461001595 catalytic residues [active] 1235461001596 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1235461001597 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1235461001598 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1235461001599 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461001600 active site 1235461001601 metal binding site [ion binding]; metal-binding site 1235461001602 hexamer interface [polypeptide binding]; other site 1235461001603 FecR protein; Region: FecR; pfam04773 1235461001604 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1235461001605 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 1235461001606 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461001607 cyclase homology domain; Region: CHD; cd07302 1235461001608 nucleotidyl binding site; other site 1235461001609 metal binding site [ion binding]; metal-binding site 1235461001610 dimer interface [polypeptide binding]; other site 1235461001611 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461001612 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461001613 ligand binding site [chemical binding]; other site 1235461001614 flexible hinge region; other site 1235461001615 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1235461001616 putative switch regulator; other site 1235461001617 non-specific DNA interactions [nucleotide binding]; other site 1235461001618 DNA binding site [nucleotide binding] 1235461001619 sequence specific DNA binding site [nucleotide binding]; other site 1235461001620 putative cAMP binding site [chemical binding]; other site 1235461001621 Predicted membrane protein [Function unknown]; Region: COG2259 1235461001622 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1235461001623 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1235461001624 non-specific DNA interactions [nucleotide binding]; other site 1235461001625 DNA binding site [nucleotide binding] 1235461001626 sequence specific DNA binding site [nucleotide binding]; other site 1235461001627 putative cAMP binding site [chemical binding]; other site 1235461001628 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1235461001629 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461001630 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461001631 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1235461001632 ligand binding site [chemical binding]; other site 1235461001633 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461001634 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461001635 TM-ABC transporter signature motif; other site 1235461001636 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461001637 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461001638 Walker A/P-loop; other site 1235461001639 ATP binding site [chemical binding]; other site 1235461001640 Q-loop/lid; other site 1235461001641 ABC transporter signature motif; other site 1235461001642 Walker B; other site 1235461001643 D-loop; other site 1235461001644 H-loop/switch region; other site 1235461001645 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 1235461001646 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1235461001647 active site 1235461001648 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1235461001649 active site 1235461001650 substrate binding pocket [chemical binding]; other site 1235461001651 dimer interface [polypeptide binding]; other site 1235461001652 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1235461001653 active site 1235461001654 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461001655 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1235461001656 putative substrate binding site [chemical binding]; other site 1235461001657 putative ATP binding site [chemical binding]; other site 1235461001658 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1235461001659 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1235461001660 active site 1235461001661 dimer interface [polypeptide binding]; other site 1235461001662 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1235461001663 dimer interface [polypeptide binding]; other site 1235461001664 active site 1235461001665 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1235461001666 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1235461001667 acyl-activating enzyme (AAE) consensus motif; other site 1235461001668 putative AMP binding site [chemical binding]; other site 1235461001669 putative active site [active] 1235461001670 putative CoA binding site [chemical binding]; other site 1235461001671 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1235461001672 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461001673 putative substrate translocation pore; other site 1235461001674 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1235461001675 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1235461001676 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1235461001677 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1235461001678 putative acyl-acceptor binding pocket; other site 1235461001679 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1235461001680 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1235461001681 Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]; Region: AcfC; COG4588 1235461001682 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1235461001683 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1235461001684 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1235461001685 FMN binding site [chemical binding]; other site 1235461001686 substrate binding site [chemical binding]; other site 1235461001687 putative catalytic residue [active] 1235461001688 Uncharacterized conserved protein [Function unknown]; Region: COG2326 1235461001689 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1235461001690 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461001691 dimer interface [polypeptide binding]; other site 1235461001692 phosphorylation site [posttranslational modification] 1235461001693 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461001694 ATP binding site [chemical binding]; other site 1235461001695 Mg2+ binding site [ion binding]; other site 1235461001696 G-X-G motif; other site 1235461001697 PBP superfamily domain; Region: PBP_like_2; pfam12849 1235461001698 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1235461001699 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1235461001700 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461001701 dimer interface [polypeptide binding]; other site 1235461001702 conserved gate region; other site 1235461001703 putative PBP binding loops; other site 1235461001704 ABC-ATPase subunit interface; other site 1235461001705 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1235461001706 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1235461001707 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461001708 dimer interface [polypeptide binding]; other site 1235461001709 conserved gate region; other site 1235461001710 putative PBP binding loops; other site 1235461001711 ABC-ATPase subunit interface; other site 1235461001712 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1235461001713 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1235461001714 Walker A/P-loop; other site 1235461001715 ATP binding site [chemical binding]; other site 1235461001716 Q-loop/lid; other site 1235461001717 ABC transporter signature motif; other site 1235461001718 Walker B; other site 1235461001719 D-loop; other site 1235461001720 H-loop/switch region; other site 1235461001721 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1235461001722 PhoU domain; Region: PhoU; pfam01895 1235461001723 PhoU domain; Region: PhoU; pfam01895 1235461001724 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1235461001725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461001726 active site 1235461001727 phosphorylation site [posttranslational modification] 1235461001728 intermolecular recognition site; other site 1235461001729 dimerization interface [polypeptide binding]; other site 1235461001730 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461001731 DNA binding site [nucleotide binding] 1235461001732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 1235461001733 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1235461001734 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461001735 inhibitor-cofactor binding pocket; inhibition site 1235461001736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461001737 catalytic residue [active] 1235461001738 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1235461001739 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1235461001740 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1235461001741 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1235461001742 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1235461001743 dimerization interface [polypeptide binding]; other site 1235461001744 domain crossover interface; other site 1235461001745 redox-dependent activation switch; other site 1235461001746 Uncharacterized protein affecting Mg2+/Co2+ transport [Inorganic ion transport and metabolism]; Region: ApaG; COG2967 1235461001747 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1235461001748 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 1235461001749 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1235461001750 homodimer interface [polypeptide binding]; other site 1235461001751 substrate-cofactor binding pocket; other site 1235461001752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461001753 catalytic residue [active] 1235461001754 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1235461001755 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1235461001756 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1235461001757 trimer interface [polypeptide binding]; other site 1235461001758 active site 1235461001759 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 1235461001760 trimer interface [polypeptide binding]; other site 1235461001761 active site 1235461001762 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1235461001763 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1235461001764 tellurite resistance protein terB; Region: terB; cd07176 1235461001765 putative metal binding site [ion binding]; other site 1235461001766 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1235461001767 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1235461001768 Predicted transcriptional regulator [Transcription]; Region: COG2932 1235461001769 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1235461001770 Catalytic site [active] 1235461001771 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1235461001772 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1235461001773 Predicted transcriptional regulators [Transcription]; Region: COG1733 1235461001774 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1235461001775 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 1235461001776 putative hydrophobic ligand binding site [chemical binding]; other site 1235461001777 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1235461001778 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461001779 substrate binding site [chemical binding]; other site 1235461001780 oxyanion hole (OAH) forming residues; other site 1235461001781 trimer interface [polypeptide binding]; other site 1235461001782 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1235461001783 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1235461001784 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1235461001785 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1235461001786 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1235461001787 dimer interface [polypeptide binding]; other site 1235461001788 active site 1235461001789 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1235461001790 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1235461001791 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1235461001792 FAD binding site [chemical binding]; other site 1235461001793 substrate binding site [chemical binding]; other site 1235461001794 catalytic residues [active] 1235461001795 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1235461001796 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1235461001797 Sel1 repeat; Region: Sel1; pfam08238 1235461001798 Sel1-like repeats; Region: SEL1; smart00671 1235461001799 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1235461001800 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461001801 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1235461001802 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 1235461001803 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461001804 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461001805 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461001806 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1235461001807 putative active site [active] 1235461001808 putative metal binding site [ion binding]; other site 1235461001809 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1235461001810 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461001811 ATP binding site [chemical binding]; other site 1235461001812 putative Mg++ binding site [ion binding]; other site 1235461001813 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461001814 nucleotide binding region [chemical binding]; other site 1235461001815 ATP-binding site [chemical binding]; other site 1235461001816 DEAD/H associated; Region: DEAD_assoc; pfam08494 1235461001817 Predicted transcriptional regulator [Transcription]; Region: COG1959 1235461001818 Transcriptional regulator; Region: Rrf2; pfam02082 1235461001819 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1235461001820 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1235461001821 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1235461001822 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1235461001823 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1235461001824 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1235461001825 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461001826 S-adenosylmethionine binding site [chemical binding]; other site 1235461001827 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1235461001828 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1235461001829 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1235461001830 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1235461001831 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1235461001832 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1235461001833 quinone interaction residues [chemical binding]; other site 1235461001834 active site 1235461001835 catalytic residues [active] 1235461001836 FMN binding site [chemical binding]; other site 1235461001837 substrate binding site [chemical binding]; other site 1235461001838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 1235461001839 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461001840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461001841 active site 1235461001842 phosphorylation site [posttranslational modification] 1235461001843 intermolecular recognition site; other site 1235461001844 dimerization interface [polypeptide binding]; other site 1235461001845 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461001846 DNA binding residues [nucleotide binding] 1235461001847 dimerization interface [polypeptide binding]; other site 1235461001848 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1235461001849 Na binding site [ion binding]; other site 1235461001850 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461001851 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461001852 dimer interface [polypeptide binding]; other site 1235461001853 phosphorylation site [posttranslational modification] 1235461001854 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461001855 ATP binding site [chemical binding]; other site 1235461001856 Mg2+ binding site [ion binding]; other site 1235461001857 G-X-G motif; other site 1235461001858 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461001859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461001860 active site 1235461001861 phosphorylation site [posttranslational modification] 1235461001862 intermolecular recognition site; other site 1235461001863 dimerization interface [polypeptide binding]; other site 1235461001864 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1235461001865 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1235461001866 aspartate aminotransferase; Provisional; Region: PRK06108 1235461001867 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461001868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461001869 homodimer interface [polypeptide binding]; other site 1235461001870 catalytic residue [active] 1235461001871 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1235461001872 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1235461001873 NAD binding site [chemical binding]; other site 1235461001874 homodimer interface [polypeptide binding]; other site 1235461001875 active site 1235461001876 substrate binding site [chemical binding]; other site 1235461001877 chorismate mutase related enzymes; Region: CM-like; TIGR01803 1235461001878 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1235461001879 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1235461001880 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1235461001881 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1235461001882 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1235461001883 metal binding site [ion binding]; metal-binding site 1235461001884 putative dimer interface [polypeptide binding]; other site 1235461001885 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461001886 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461001887 dimer interface [polypeptide binding]; other site 1235461001888 conserved gate region; other site 1235461001889 putative PBP binding loops; other site 1235461001890 ABC-ATPase subunit interface; other site 1235461001891 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461001892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461001893 dimer interface [polypeptide binding]; other site 1235461001894 conserved gate region; other site 1235461001895 putative PBP binding loops; other site 1235461001896 ABC-ATPase subunit interface; other site 1235461001897 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461001898 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461001899 substrate binding pocket [chemical binding]; other site 1235461001900 membrane-bound complex binding site; other site 1235461001901 hinge residues; other site 1235461001902 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1235461001903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461001904 Walker A/P-loop; other site 1235461001905 ATP binding site [chemical binding]; other site 1235461001906 Q-loop/lid; other site 1235461001907 ABC transporter signature motif; other site 1235461001908 Walker B; other site 1235461001909 D-loop; other site 1235461001910 H-loop/switch region; other site 1235461001911 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1235461001912 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461001913 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1235461001914 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1235461001915 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461001916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461001917 homodimer interface [polypeptide binding]; other site 1235461001918 catalytic residue [active] 1235461001919 hypothetical protein; Provisional; Region: PRK07524 1235461001920 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1235461001921 PYR/PP interface [polypeptide binding]; other site 1235461001922 dimer interface [polypeptide binding]; other site 1235461001923 TPP binding site [chemical binding]; other site 1235461001924 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1235461001925 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1235461001926 TPP-binding site [chemical binding]; other site 1235461001927 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1235461001928 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1235461001929 Protein export membrane protein; Region: SecD_SecF; pfam02355 1235461001930 Rrf2 family protein; Region: rrf2_super; TIGR00738 1235461001931 Transcriptional regulator; Region: Rrf2; pfam02082 1235461001932 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1235461001933 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1235461001934 putative active site [active] 1235461001935 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1235461001936 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1235461001937 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1235461001938 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1235461001939 Sulfatase; Region: Sulfatase; cl17466 1235461001940 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1235461001941 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 1235461001942 putative NAD(P) binding site [chemical binding]; other site 1235461001943 homotetramer interface [polypeptide binding]; other site 1235461001944 active site 1235461001945 homodimer interface [polypeptide binding]; other site 1235461001946 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1235461001947 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1235461001948 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461001949 catalytic residue [active] 1235461001950 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1235461001951 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1235461001952 active site 1235461001953 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1235461001954 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1235461001955 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1235461001956 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 1235461001957 Enoylreductase; Region: PKS_ER; smart00829 1235461001958 NAD(P) binding site [chemical binding]; other site 1235461001959 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1235461001960 short chain dehydrogenase; Region: adh_short; pfam00106 1235461001961 NAD(P) binding site [chemical binding]; other site 1235461001962 active site 1235461001963 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1235461001964 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1235461001965 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1235461001966 SLBB domain; Region: SLBB; pfam10531 1235461001967 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1235461001968 Isochorismatase family; Region: Isochorismatase; pfam00857 1235461001969 catalytic triad [active] 1235461001970 metal binding site [ion binding]; metal-binding site 1235461001971 conserved cis-peptide bond; other site 1235461001972 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 1235461001973 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 1235461001974 active site 1235461001975 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1235461001976 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1235461001977 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1235461001978 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1235461001979 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1235461001980 Uncharacterized conserved protein [Function unknown]; Region: COG5569 1235461001981 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461001982 cyclase homology domain; Region: CHD; cd07302 1235461001983 nucleotidyl binding site; other site 1235461001984 metal binding site [ion binding]; metal-binding site 1235461001985 dimer interface [polypeptide binding]; other site 1235461001986 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1235461001987 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1235461001988 catalytic residues [active] 1235461001989 catalytic nucleophile [active] 1235461001990 Presynaptic Site I dimer interface [polypeptide binding]; other site 1235461001991 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1235461001992 Synaptic Flat tetramer interface [polypeptide binding]; other site 1235461001993 Synaptic Site I dimer interface [polypeptide binding]; other site 1235461001994 DNA binding site [nucleotide binding] 1235461001995 Recombinase; Region: Recombinase; pfam07508 1235461001996 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1235461001997 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1235461001998 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1235461001999 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1235461002000 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1235461002001 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1235461002002 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1235461002003 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1235461002004 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1235461002005 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1235461002006 ATP binding site [chemical binding]; other site 1235461002007 putative Mg++ binding site [ion binding]; other site 1235461002008 RNA polymerase II transcription factor SIII (Elongin) subunit A; Region: Elongin_A; pfam06881 1235461002009 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1235461002010 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 1235461002011 Int/Topo IB signature motif; other site 1235461002012 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1235461002013 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1235461002014 hinge; other site 1235461002015 active site 1235461002016 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 1235461002017 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1235461002018 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1235461002019 NAD binding site [chemical binding]; other site 1235461002020 dimerization interface [polypeptide binding]; other site 1235461002021 product binding site; other site 1235461002022 substrate binding site [chemical binding]; other site 1235461002023 zinc binding site [ion binding]; other site 1235461002024 catalytic residues [active] 1235461002025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5328 1235461002026 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1235461002027 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1235461002028 active site 1235461002029 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1235461002030 rRNA binding site [nucleotide binding]; other site 1235461002031 predicted 30S ribosome binding site; other site 1235461002032 Maf-like protein; Region: Maf; pfam02545 1235461002033 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1235461002034 active site 1235461002035 dimer interface [polypeptide binding]; other site 1235461002036 zinc-binding protein; Provisional; Region: PRK01343 1235461002037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 1235461002038 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1235461002039 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1235461002040 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1235461002041 active site 1235461002042 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 1235461002043 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1235461002044 putative deacylase active site [active] 1235461002045 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 1235461002046 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 1235461002047 short chain dehydrogenase; Validated; Region: PRK08324 1235461002048 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 1235461002049 active site 1235461002050 Zn2+ binding site [ion binding]; other site 1235461002051 intersubunit interface [polypeptide binding]; other site 1235461002052 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 1235461002053 putative NAD(P) binding site [chemical binding]; other site 1235461002054 active site 1235461002055 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1235461002056 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1235461002057 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1235461002058 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1235461002059 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 1235461002060 ligand binding site [chemical binding]; other site 1235461002061 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461002062 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461002063 Walker A/P-loop; other site 1235461002064 ATP binding site [chemical binding]; other site 1235461002065 Q-loop/lid; other site 1235461002066 ABC transporter signature motif; other site 1235461002067 Walker B; other site 1235461002068 D-loop; other site 1235461002069 H-loop/switch region; other site 1235461002070 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461002071 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461002072 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461002073 TM-ABC transporter signature motif; other site 1235461002074 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461002075 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461002076 TM-ABC transporter signature motif; other site 1235461002077 Uncharacterized conserved protein [Function unknown]; Region: COG3254 1235461002078 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1235461002079 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 1235461002080 N- and C-terminal domain interface [polypeptide binding]; other site 1235461002081 putative active site [active] 1235461002082 putative MgATP binding site [chemical binding]; other site 1235461002083 putative catalytic site [active] 1235461002084 metal binding site [ion binding]; metal-binding site 1235461002085 putative carbohydrate binding site [chemical binding]; other site 1235461002086 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1235461002087 heme-binding site [chemical binding]; other site 1235461002088 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1235461002089 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1235461002090 dimer interface [polypeptide binding]; other site 1235461002091 putative CheW interface [polypeptide binding]; other site 1235461002092 STAS domain; Region: STAS_2; pfam13466 1235461002093 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461002094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461002095 active site 1235461002096 phosphorylation site [posttranslational modification] 1235461002097 intermolecular recognition site; other site 1235461002098 dimerization interface [polypeptide binding]; other site 1235461002099 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1235461002100 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1235461002101 putative binding surface; other site 1235461002102 active site 1235461002103 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1235461002104 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461002105 ATP binding site [chemical binding]; other site 1235461002106 Mg2+ binding site [ion binding]; other site 1235461002107 G-X-G motif; other site 1235461002108 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1235461002109 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1235461002110 putative CheA interaction surface; other site 1235461002111 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1235461002112 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1235461002113 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1235461002114 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1235461002115 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461002116 active site 1235461002117 phosphorylation site [posttranslational modification] 1235461002118 intermolecular recognition site; other site 1235461002119 dimerization interface [polypeptide binding]; other site 1235461002120 CheB methylesterase; Region: CheB_methylest; pfam01339 1235461002121 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461002122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461002123 active site 1235461002124 phosphorylation site [posttranslational modification] 1235461002125 intermolecular recognition site; other site 1235461002126 dimerization interface [polypeptide binding]; other site 1235461002127 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13497 1235461002128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461002129 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461002130 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461002131 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1235461002132 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1235461002133 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1235461002134 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461002135 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461002136 dimerization interface [polypeptide binding]; other site 1235461002137 DNA binding residues [nucleotide binding] 1235461002138 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461002139 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461002140 DNA binding residues [nucleotide binding] 1235461002141 dimerization interface [polypeptide binding]; other site 1235461002142 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1235461002143 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1235461002144 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1235461002145 FliG C-terminal domain; Region: FliG_C; pfam01706 1235461002146 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1235461002147 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 1235461002148 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1235461002149 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1235461002150 flagellar motor protein MotA; Validated; Region: PRK09110 1235461002151 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1235461002152 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1235461002153 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 1235461002154 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1235461002155 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1235461002156 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 1235461002157 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1235461002158 Walker A motif; other site 1235461002159 ATP binding site [chemical binding]; other site 1235461002160 Walker B motif; other site 1235461002161 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 1235461002162 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 1235461002163 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1235461002164 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1235461002165 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 1235461002166 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 1235461002167 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1235461002168 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 1235461002169 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1235461002170 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1235461002171 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1235461002172 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1235461002173 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1235461002174 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1235461002175 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1235461002176 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1235461002177 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1235461002178 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1235461002179 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1235461002180 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1235461002181 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1235461002182 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1235461002183 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1235461002184 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 1235461002185 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1235461002186 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1235461002187 flagellin; Reviewed; Region: PRK12687 1235461002188 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1235461002189 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1235461002190 flagellar motor protein MotB; Validated; Region: motB; PRK05996 1235461002191 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1235461002192 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1235461002193 ligand binding site [chemical binding]; other site 1235461002194 chemotaxis protein; Reviewed; Region: PRK12798 1235461002195 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1235461002196 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1235461002197 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461002198 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461002199 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461002200 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461002201 DNA binding site [nucleotide binding] 1235461002202 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1235461002203 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1235461002204 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1235461002205 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1235461002206 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 1235461002207 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 1235461002208 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1235461002209 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1235461002210 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 1235461002211 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 1235461002212 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 1235461002213 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 1235461002214 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1235461002215 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 1235461002216 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1235461002217 FHIPEP family; Region: FHIPEP; pfam00771 1235461002218 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1235461002219 Rod binding protein; Region: Rod-binding; pfam10135 1235461002220 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461002221 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1235461002222 active site 1235461002223 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1235461002224 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1235461002225 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1235461002226 homodimer interface [polypeptide binding]; other site 1235461002227 NADP binding site [chemical binding]; other site 1235461002228 substrate binding site [chemical binding]; other site 1235461002229 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461002230 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461002231 DNA binding site [nucleotide binding] 1235461002232 domain linker motif; other site 1235461002233 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1235461002234 ligand binding site [chemical binding]; other site 1235461002235 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461002236 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461002237 dimer interface [polypeptide binding]; other site 1235461002238 conserved gate region; other site 1235461002239 putative PBP binding loops; other site 1235461002240 ABC-ATPase subunit interface; other site 1235461002241 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461002242 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461002243 dimer interface [polypeptide binding]; other site 1235461002244 conserved gate region; other site 1235461002245 putative PBP binding loops; other site 1235461002246 ABC-ATPase subunit interface; other site 1235461002247 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 1235461002248 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1235461002249 active site 1235461002250 catalytic site [active] 1235461002251 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461002252 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461002253 Walker A/P-loop; other site 1235461002254 ATP binding site [chemical binding]; other site 1235461002255 Q-loop/lid; other site 1235461002256 ABC transporter signature motif; other site 1235461002257 Walker B; other site 1235461002258 D-loop; other site 1235461002259 H-loop/switch region; other site 1235461002260 TOBE domain; Region: TOBE_2; pfam08402 1235461002261 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1235461002262 phosphogluconate dehydratase; Validated; Region: PRK09054 1235461002263 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1235461002264 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1235461002265 putative active site [active] 1235461002266 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1235461002267 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1235461002268 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1235461002269 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461002270 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461002271 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1235461002272 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1235461002273 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1235461002274 Predicted flavoproteins [General function prediction only]; Region: COG2081 1235461002275 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461002276 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461002277 dimerization interface [polypeptide binding]; other site 1235461002278 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1235461002279 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1235461002280 dimer interface [polypeptide binding]; other site 1235461002281 putative CheW interface [polypeptide binding]; other site 1235461002282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461002283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461002284 isocitrate lyase; Provisional; Region: PRK15063 1235461002285 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1235461002286 tetramer interface [polypeptide binding]; other site 1235461002287 active site 1235461002288 Mg2+/Mn2+ binding site [ion binding]; other site 1235461002289 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461002290 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461002291 non-specific DNA binding site [nucleotide binding]; other site 1235461002292 salt bridge; other site 1235461002293 sequence-specific DNA binding site [nucleotide binding]; other site 1235461002294 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1235461002295 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1235461002296 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1235461002297 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1235461002298 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461002299 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461002300 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1235461002301 Walker A/P-loop; other site 1235461002302 ATP binding site [chemical binding]; other site 1235461002303 Q-loop/lid; other site 1235461002304 ABC transporter signature motif; other site 1235461002305 Walker B; other site 1235461002306 D-loop; other site 1235461002307 H-loop/switch region; other site 1235461002308 TOBE domain; Region: TOBE_2; pfam08402 1235461002309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461002310 dimer interface [polypeptide binding]; other site 1235461002311 conserved gate region; other site 1235461002312 putative PBP binding loops; other site 1235461002313 ABC-ATPase subunit interface; other site 1235461002314 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461002315 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461002316 dimer interface [polypeptide binding]; other site 1235461002317 conserved gate region; other site 1235461002318 putative PBP binding loops; other site 1235461002319 ABC-ATPase subunit interface; other site 1235461002320 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1235461002321 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1235461002322 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1235461002323 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1235461002324 acyl-activating enzyme (AAE) consensus motif; other site 1235461002325 putative AMP binding site [chemical binding]; other site 1235461002326 putative active site [active] 1235461002327 putative CoA binding site [chemical binding]; other site 1235461002328 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1235461002329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461002330 dimer interface [polypeptide binding]; other site 1235461002331 conserved gate region; other site 1235461002332 putative PBP binding loops; other site 1235461002333 ABC-ATPase subunit interface; other site 1235461002334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461002335 dimer interface [polypeptide binding]; other site 1235461002336 conserved gate region; other site 1235461002337 putative PBP binding loops; other site 1235461002338 ABC-ATPase subunit interface; other site 1235461002339 PAS domain S-box; Region: sensory_box; TIGR00229 1235461002340 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461002341 putative active site [active] 1235461002342 heme pocket [chemical binding]; other site 1235461002343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461002344 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461002345 dimer interface [polypeptide binding]; other site 1235461002346 phosphorylation site [posttranslational modification] 1235461002347 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461002348 ATP binding site [chemical binding]; other site 1235461002349 Mg2+ binding site [ion binding]; other site 1235461002350 G-X-G motif; other site 1235461002351 Uncharacterized conserved protein [Function unknown]; Region: COG5490 1235461002352 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1235461002353 classical (c) SDRs; Region: SDR_c; cd05233 1235461002354 NAD(P) binding site [chemical binding]; other site 1235461002355 active site 1235461002356 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1235461002357 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461002358 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1235461002359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461002360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461002361 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461002362 dimerization interface [polypeptide binding]; other site 1235461002363 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1235461002364 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1235461002365 tetrameric interface [polypeptide binding]; other site 1235461002366 NAD binding site [chemical binding]; other site 1235461002367 catalytic residues [active] 1235461002368 Predicted membrane protein [Function unknown]; Region: COG4269 1235461002369 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1235461002370 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1235461002371 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461002372 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 1235461002373 Rrf2 family protein; Region: rrf2_super; TIGR00738 1235461002374 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461002375 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1235461002376 peptide binding site [polypeptide binding]; other site 1235461002377 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461002378 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461002379 dimer interface [polypeptide binding]; other site 1235461002380 conserved gate region; other site 1235461002381 putative PBP binding loops; other site 1235461002382 ABC-ATPase subunit interface; other site 1235461002383 dipeptide transporter; Provisional; Region: PRK10913 1235461002384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461002385 dimer interface [polypeptide binding]; other site 1235461002386 conserved gate region; other site 1235461002387 putative PBP binding loops; other site 1235461002388 ABC-ATPase subunit interface; other site 1235461002389 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461002390 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1235461002391 Walker A/P-loop; other site 1235461002392 ATP binding site [chemical binding]; other site 1235461002393 Q-loop/lid; other site 1235461002394 ABC transporter signature motif; other site 1235461002395 Walker B; other site 1235461002396 D-loop; other site 1235461002397 H-loop/switch region; other site 1235461002398 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461002399 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461002400 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1235461002401 Walker A/P-loop; other site 1235461002402 ATP binding site [chemical binding]; other site 1235461002403 Q-loop/lid; other site 1235461002404 ABC transporter signature motif; other site 1235461002405 Walker B; other site 1235461002406 D-loop; other site 1235461002407 H-loop/switch region; other site 1235461002408 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461002409 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1235461002410 homotrimer interaction site [polypeptide binding]; other site 1235461002411 putative active site [active] 1235461002412 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1235461002413 two-component response regulator; Provisional; Region: PRK09191 1235461002414 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1235461002415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461002416 active site 1235461002417 phosphorylation site [posttranslational modification] 1235461002418 intermolecular recognition site; other site 1235461002419 dimerization interface [polypeptide binding]; other site 1235461002420 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461002421 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461002422 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461002423 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1235461002424 MgtC family; Region: MgtC; pfam02308 1235461002425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 1235461002426 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1235461002427 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1235461002428 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1235461002429 Chromate transporter; Region: Chromate_transp; pfam02417 1235461002430 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1235461002431 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1235461002432 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1235461002433 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461002434 S-adenosylmethionine binding site [chemical binding]; other site 1235461002435 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1235461002436 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461002437 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461002438 putative substrate translocation pore; other site 1235461002439 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1235461002440 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1235461002441 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1235461002442 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1235461002443 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1235461002444 active site 1235461002445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5331 1235461002446 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1235461002447 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1235461002448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461002449 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1235461002450 dimerization interface [polypeptide binding]; other site 1235461002451 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1235461002452 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1235461002453 tetramer interface [polypeptide binding]; other site 1235461002454 heme binding pocket [chemical binding]; other site 1235461002455 NADPH binding site [chemical binding]; other site 1235461002456 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1235461002457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461002458 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461002459 dimerization interface [polypeptide binding]; other site 1235461002460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 1235461002461 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461002462 non-specific DNA binding site [nucleotide binding]; other site 1235461002463 salt bridge; other site 1235461002464 sequence-specific DNA binding site [nucleotide binding]; other site 1235461002465 Uncharacterized conserved protein [Function unknown]; Region: COG5403 1235461002466 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1235461002467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1235461002468 RNA methyltransferase, RsmE family; Region: TIGR00046 1235461002469 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1235461002470 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1235461002471 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 1235461002472 nudix motif; other site 1235461002473 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461002474 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461002475 DNA-binding site [nucleotide binding]; DNA binding site 1235461002476 FCD domain; Region: FCD; pfam07729 1235461002477 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4949 1235461002478 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461002479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461002480 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461002481 putative effector binding pocket; other site 1235461002482 dimerization interface [polypeptide binding]; other site 1235461002483 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1235461002484 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461002485 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461002486 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1235461002487 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1235461002488 Cysteine-rich domain; Region: CCG; pfam02754 1235461002489 Cysteine-rich domain; Region: CCG; pfam02754 1235461002490 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461002491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461002492 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461002493 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461002494 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461002495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461002496 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461002497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461002498 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461002499 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1235461002500 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 1235461002501 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1235461002502 Na binding site [ion binding]; other site 1235461002503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 1235461002504 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1235461002505 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1235461002506 dimer interface [polypeptide binding]; other site 1235461002507 motif 1; other site 1235461002508 active site 1235461002509 motif 2; other site 1235461002510 motif 3; other site 1235461002511 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1235461002512 anticodon binding site; other site 1235461002513 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 1235461002514 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1235461002515 motif 1; other site 1235461002516 dimer interface [polypeptide binding]; other site 1235461002517 active site 1235461002518 motif 2; other site 1235461002519 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1235461002520 motif 3; other site 1235461002521 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1235461002522 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 1235461002523 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1235461002524 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1235461002525 C-terminal domain interface [polypeptide binding]; other site 1235461002526 GSH binding site (G-site) [chemical binding]; other site 1235461002527 dimer interface [polypeptide binding]; other site 1235461002528 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1235461002529 dimer interface [polypeptide binding]; other site 1235461002530 N-terminal domain interface [polypeptide binding]; other site 1235461002531 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1235461002532 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461002533 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461002534 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1235461002535 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1235461002536 ring oligomerisation interface [polypeptide binding]; other site 1235461002537 ATP/Mg binding site [chemical binding]; other site 1235461002538 stacking interactions; other site 1235461002539 hinge regions; other site 1235461002540 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1235461002541 oligomerisation interface [polypeptide binding]; other site 1235461002542 mobile loop; other site 1235461002543 roof hairpin; other site 1235461002544 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1235461002545 active site residue [active] 1235461002546 Uncharacterized conserved protein [Function unknown]; Region: COG4275 1235461002547 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1235461002548 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1235461002549 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1235461002550 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1235461002551 active site 1235461002552 Riboflavin kinase; Region: Flavokinase; smart00904 1235461002553 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1235461002554 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1235461002555 active site 1235461002556 HIGH motif; other site 1235461002557 nucleotide binding site [chemical binding]; other site 1235461002558 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1235461002559 active site 1235461002560 KMSKS motif; other site 1235461002561 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1235461002562 tRNA binding surface [nucleotide binding]; other site 1235461002563 anticodon binding site; other site 1235461002564 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1235461002565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461002566 Coenzyme A binding pocket [chemical binding]; other site 1235461002567 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1235461002568 nucleoside/Zn binding site; other site 1235461002569 dimer interface [polypeptide binding]; other site 1235461002570 catalytic motif [active] 1235461002571 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1235461002572 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1235461002573 RNA binding surface [nucleotide binding]; other site 1235461002574 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1235461002575 active site 1235461002576 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1235461002577 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461002578 S-adenosylmethionine binding site [chemical binding]; other site 1235461002579 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1235461002580 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1235461002581 nucleophile elbow; other site 1235461002582 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1235461002583 putative active site [active] 1235461002584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4423 1235461002585 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1235461002586 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1235461002587 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1235461002588 TrkA-N domain; Region: TrkA_N; pfam02254 1235461002589 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1235461002590 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461002591 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1235461002592 active site 1235461002593 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 1235461002594 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1235461002595 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1235461002596 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1235461002597 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1235461002598 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461002599 motif II; other site 1235461002600 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1235461002601 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1235461002602 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461002603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461002604 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461002605 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461002606 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461002607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 1235461002608 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1235461002609 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461002610 ATP binding site [chemical binding]; other site 1235461002611 Mg2+ binding site [ion binding]; other site 1235461002612 G-X-G motif; other site 1235461002613 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1235461002614 ATP binding site [chemical binding]; other site 1235461002615 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1235461002616 PAS fold; Region: PAS_4; pfam08448 1235461002617 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461002618 putative active site [active] 1235461002619 heme pocket [chemical binding]; other site 1235461002620 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461002621 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461002622 active site 1235461002623 phosphorylation site [posttranslational modification] 1235461002624 intermolecular recognition site; other site 1235461002625 dimerization interface [polypeptide binding]; other site 1235461002626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461002627 metal binding site [ion binding]; metal-binding site 1235461002628 active site 1235461002629 I-site; other site 1235461002630 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461002631 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461002632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461002633 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1235461002634 dimerization interface [polypeptide binding]; other site 1235461002635 substrate binding pocket [chemical binding]; other site 1235461002636 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 1235461002637 PRC-barrel domain; Region: PRC; pfam05239 1235461002638 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1235461002639 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1235461002640 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1235461002641 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1235461002642 active site 1235461002643 intersubunit interface [polypeptide binding]; other site 1235461002644 catalytic residue [active] 1235461002645 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1235461002646 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1235461002647 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461002648 classical (c) SDRs; Region: SDR_c; cd05233 1235461002649 NAD(P) binding site [chemical binding]; other site 1235461002650 active site 1235461002651 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1235461002652 Bacterial transcriptional regulator; Region: IclR; pfam01614 1235461002653 transcriptional regulator TraR; Provisional; Region: PRK13870 1235461002654 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1235461002655 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461002656 DNA binding residues [nucleotide binding] 1235461002657 dimerization interface [polypeptide binding]; other site 1235461002658 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 1235461002659 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1235461002660 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461002661 DNA binding residues [nucleotide binding] 1235461002662 dimerization interface [polypeptide binding]; other site 1235461002663 Domain of unknown function DUF59; Region: DUF59; pfam01883 1235461002664 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1235461002665 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1235461002666 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1235461002667 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1235461002668 Cl binding site [ion binding]; other site 1235461002669 oligomer interface [polypeptide binding]; other site 1235461002670 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1235461002671 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1235461002672 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1235461002673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1235461002674 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1235461002675 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1235461002676 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1235461002677 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 1235461002678 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1235461002679 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 1235461002680 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 1235461002681 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1235461002682 RNA/DNA hybrid binding site [nucleotide binding]; other site 1235461002683 active site 1235461002684 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1235461002685 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461002686 FeS/SAM binding site; other site 1235461002687 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1235461002688 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461002689 active site 1235461002690 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1235461002691 MPT binding site; other site 1235461002692 trimer interface [polypeptide binding]; other site 1235461002693 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1235461002694 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1235461002695 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1235461002696 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461002697 TPR motif; other site 1235461002698 binding surface 1235461002699 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461002700 binding surface 1235461002701 TPR motif; other site 1235461002702 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461002703 binding surface 1235461002704 TPR motif; other site 1235461002705 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1235461002706 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1235461002707 substrate binding pocket [chemical binding]; other site 1235461002708 chain length determination region; other site 1235461002709 substrate-Mg2+ binding site; other site 1235461002710 catalytic residues [active] 1235461002711 aspartate-rich region 1; other site 1235461002712 active site lid residues [active] 1235461002713 aspartate-rich region 2; other site 1235461002714 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1235461002715 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1235461002716 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461002717 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1235461002718 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1235461002719 tandem repeat interface [polypeptide binding]; other site 1235461002720 oligomer interface [polypeptide binding]; other site 1235461002721 active site residues [active] 1235461002722 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1235461002723 dimer interface [polypeptide binding]; other site 1235461002724 motif 1; other site 1235461002725 active site 1235461002726 motif 2; other site 1235461002727 motif 3; other site 1235461002728 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1235461002729 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1235461002730 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 1235461002731 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1235461002732 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1235461002733 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1235461002734 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1235461002735 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1235461002736 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1235461002737 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1235461002738 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461002739 metal binding site [ion binding]; metal-binding site 1235461002740 active site 1235461002741 I-site; other site 1235461002742 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461002743 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461002744 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461002745 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461002746 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461002747 putative substrate translocation pore; other site 1235461002748 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1235461002749 Helix-turn-helix domain; Region: HTH_18; pfam12833 1235461002750 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1235461002751 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1235461002752 UbiA prenyltransferase family; Region: UbiA; pfam01040 1235461002753 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1235461002754 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1235461002755 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1235461002756 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1235461002757 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1235461002758 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1235461002759 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1235461002760 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461002761 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1235461002762 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1235461002763 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1235461002764 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1235461002765 [2Fe-2S] cluster binding site [ion binding]; other site 1235461002766 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1235461002767 putative alpha subunit interface [polypeptide binding]; other site 1235461002768 putative active site [active] 1235461002769 putative substrate binding site [chemical binding]; other site 1235461002770 Fe binding site [ion binding]; other site 1235461002771 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1235461002772 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1235461002773 FAD binding pocket [chemical binding]; other site 1235461002774 FAD binding motif [chemical binding]; other site 1235461002775 phosphate binding motif [ion binding]; other site 1235461002776 beta-alpha-beta structure motif; other site 1235461002777 NAD binding pocket [chemical binding]; other site 1235461002778 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461002779 catalytic loop [active] 1235461002780 iron binding site [ion binding]; other site 1235461002781 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 1235461002782 active site 1235461002783 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1235461002784 BA14K-like protein; Region: BA14K; pfam07886 1235461002785 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1235461002786 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1235461002787 Cl binding site [ion binding]; other site 1235461002788 oligomer interface [polypeptide binding]; other site 1235461002789 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1235461002790 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1235461002791 active site 1235461002792 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1235461002793 enoyl-CoA hydratase; Provisional; Region: PRK06688 1235461002794 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461002795 substrate binding site [chemical binding]; other site 1235461002796 oxyanion hole (OAH) forming residues; other site 1235461002797 trimer interface [polypeptide binding]; other site 1235461002798 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1235461002799 TRAM domain; Region: TRAM; cl01282 1235461002800 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461002801 S-adenosylmethionine binding site [chemical binding]; other site 1235461002802 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1235461002803 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1235461002804 RNA binding surface [nucleotide binding]; other site 1235461002805 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1235461002806 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 1235461002807 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1235461002808 TPP-binding site; other site 1235461002809 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1235461002810 PYR/PP interface [polypeptide binding]; other site 1235461002811 dimer interface [polypeptide binding]; other site 1235461002812 TPP binding site [chemical binding]; other site 1235461002813 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1235461002814 Pirin-related protein [General function prediction only]; Region: COG1741 1235461002815 Pirin; Region: Pirin; pfam02678 1235461002816 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1235461002817 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1235461002818 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1235461002819 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1235461002820 putative active site [active] 1235461002821 Zn binding site [ion binding]; other site 1235461002822 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461002823 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 1235461002824 NADP binding site [chemical binding]; other site 1235461002825 dimer interface [polypeptide binding]; other site 1235461002826 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1235461002827 active site 1235461002828 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1235461002829 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1235461002830 dimer interface [polypeptide binding]; other site 1235461002831 active site 1235461002832 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1235461002833 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1235461002834 acyl-activating enzyme (AAE) consensus motif; other site 1235461002835 AMP binding site [chemical binding]; other site 1235461002836 active site 1235461002837 CoA binding site [chemical binding]; other site 1235461002838 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1235461002839 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1235461002840 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1235461002841 Walker A/P-loop; other site 1235461002842 ATP binding site [chemical binding]; other site 1235461002843 Q-loop/lid; other site 1235461002844 ABC transporter signature motif; other site 1235461002845 Walker B; other site 1235461002846 D-loop; other site 1235461002847 H-loop/switch region; other site 1235461002848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1235461002849 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1235461002850 protease TldD; Provisional; Region: tldD; PRK10735 1235461002851 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1235461002852 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1235461002853 Sporulation related domain; Region: SPOR; pfam05036 1235461002854 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1235461002855 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 1235461002856 putative active site [active] 1235461002857 putative metal binding site [ion binding]; other site 1235461002858 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1235461002859 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1235461002860 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1235461002861 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1235461002862 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1235461002863 HSP70 interaction site [polypeptide binding]; other site 1235461002864 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1235461002865 substrate binding site [polypeptide binding]; other site 1235461002866 dimer interface [polypeptide binding]; other site 1235461002867 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1235461002868 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1235461002869 NAD binding site [chemical binding]; other site 1235461002870 homotetramer interface [polypeptide binding]; other site 1235461002871 homodimer interface [polypeptide binding]; other site 1235461002872 substrate binding site [chemical binding]; other site 1235461002873 active site 1235461002874 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1235461002875 catalytic core [active] 1235461002876 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 1235461002877 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1235461002878 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1235461002879 Tetramer interface [polypeptide binding]; other site 1235461002880 active site 1235461002881 FMN-binding site [chemical binding]; other site 1235461002882 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1235461002883 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1235461002884 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1235461002885 dimerization interface [polypeptide binding]; other site 1235461002886 active site 1235461002887 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1235461002888 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 1235461002889 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1235461002890 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1235461002891 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 1235461002892 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1235461002893 Subunit I/III interface [polypeptide binding]; other site 1235461002894 D-pathway; other site 1235461002895 Subunit I/VIIc interface [polypeptide binding]; other site 1235461002896 Subunit I/IV interface [polypeptide binding]; other site 1235461002897 Subunit I/II interface [polypeptide binding]; other site 1235461002898 Low-spin heme (heme a) binding site [chemical binding]; other site 1235461002899 Subunit I/VIIa interface [polypeptide binding]; other site 1235461002900 Subunit I/VIa interface [polypeptide binding]; other site 1235461002901 Dimer interface; other site 1235461002902 Putative water exit pathway; other site 1235461002903 Binuclear center (heme a3/CuB) [ion binding]; other site 1235461002904 K-pathway; other site 1235461002905 Subunit I/Vb interface [polypeptide binding]; other site 1235461002906 Putative proton exit pathway; other site 1235461002907 Subunit I/VIb interface; other site 1235461002908 Subunit I/VIc interface [polypeptide binding]; other site 1235461002909 Electron transfer pathway; other site 1235461002910 Subunit I/VIIIb interface [polypeptide binding]; other site 1235461002911 Subunit I/VIIb interface [polypeptide binding]; other site 1235461002912 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1235461002913 UbiA prenyltransferase family; Region: UbiA; pfam01040 1235461002914 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1235461002915 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1235461002916 Subunit III/VIIa interface [polypeptide binding]; other site 1235461002917 Phospholipid binding site [chemical binding]; other site 1235461002918 Subunit I/III interface [polypeptide binding]; other site 1235461002919 Subunit III/VIb interface [polypeptide binding]; other site 1235461002920 Subunit III/VIa interface; other site 1235461002921 Subunit III/Vb interface [polypeptide binding]; other site 1235461002922 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461002923 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 1235461002924 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1235461002925 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1235461002926 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1235461002927 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1235461002928 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1235461002929 putative active site [active] 1235461002930 putative substrate binding site [chemical binding]; other site 1235461002931 ATP binding site [chemical binding]; other site 1235461002932 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1235461002933 RNA/DNA hybrid binding site [nucleotide binding]; other site 1235461002934 active site 1235461002935 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1235461002936 catalytic triad [active] 1235461002937 dimer interface [polypeptide binding]; other site 1235461002938 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 1235461002939 hypothetical protein; Validated; Region: PRK00228 1235461002940 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1235461002941 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1235461002942 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461002943 PAS fold; Region: PAS_3; pfam08447 1235461002944 putative active site [active] 1235461002945 heme pocket [chemical binding]; other site 1235461002946 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461002947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461002948 metal binding site [ion binding]; metal-binding site 1235461002949 active site 1235461002950 I-site; other site 1235461002951 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461002952 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1235461002953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1235461002954 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1235461002955 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1235461002956 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1235461002957 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1235461002958 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1235461002959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461002960 catalytic residue [active] 1235461002961 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1235461002962 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1235461002963 dimerization interface [polypeptide binding]; other site 1235461002964 ligand binding site [chemical binding]; other site 1235461002965 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1235461002966 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461002967 motif II; other site 1235461002968 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461002969 dimerization interface [polypeptide binding]; other site 1235461002970 putative DNA binding site [nucleotide binding]; other site 1235461002971 putative Zn2+ binding site [ion binding]; other site 1235461002972 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1235461002973 DNA methylase; Region: N6_N4_Mtase; pfam01555 1235461002974 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1235461002975 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1235461002976 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1235461002977 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1235461002978 minor groove reading motif; other site 1235461002979 helix-hairpin-helix signature motif; other site 1235461002980 substrate binding pocket [chemical binding]; other site 1235461002981 active site 1235461002982 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1235461002983 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1235461002984 DNA binding and oxoG recognition site [nucleotide binding] 1235461002985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 1235461002986 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1235461002987 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1235461002988 catalytic residues [active] 1235461002989 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1235461002990 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1235461002991 Walker A/P-loop; other site 1235461002992 ATP binding site [chemical binding]; other site 1235461002993 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1235461002994 ABC transporter signature motif; other site 1235461002995 Walker B; other site 1235461002996 D-loop; other site 1235461002997 H-loop/switch region; other site 1235461002998 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1235461002999 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1235461003000 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1235461003001 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1235461003002 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 1235461003003 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461003004 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1235461003005 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1235461003006 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1235461003007 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461003008 non-specific DNA binding site [nucleotide binding]; other site 1235461003009 salt bridge; other site 1235461003010 sequence-specific DNA binding site [nucleotide binding]; other site 1235461003011 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1235461003012 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1235461003013 CysD dimerization site [polypeptide binding]; other site 1235461003014 G1 box; other site 1235461003015 putative GEF interaction site [polypeptide binding]; other site 1235461003016 GTP/Mg2+ binding site [chemical binding]; other site 1235461003017 Switch I region; other site 1235461003018 G2 box; other site 1235461003019 G3 box; other site 1235461003020 Switch II region; other site 1235461003021 G4 box; other site 1235461003022 G5 box; other site 1235461003023 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1235461003024 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1235461003025 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1235461003026 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1235461003027 Active Sites [active] 1235461003028 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1235461003029 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1235461003030 Active Sites [active] 1235461003031 choline dehydrogenase; Validated; Region: PRK02106 1235461003032 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1235461003033 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1235461003034 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1235461003035 NAD(P) binding site [chemical binding]; other site 1235461003036 catalytic residues [active] 1235461003037 Sulfatase; Region: Sulfatase; cl17466 1235461003038 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1235461003039 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1235461003040 transcriptional regulator BetI; Validated; Region: PRK00767 1235461003041 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461003042 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1235461003043 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1235461003044 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461003045 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1235461003046 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461003047 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461003048 metal binding site [ion binding]; metal-binding site 1235461003049 active site 1235461003050 I-site; other site 1235461003051 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1235461003052 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1235461003053 NAD(P) binding site [chemical binding]; other site 1235461003054 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 1235461003055 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 1235461003056 glutathionine S-transferase; Provisional; Region: PRK10542 1235461003057 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1235461003058 C-terminal domain interface [polypeptide binding]; other site 1235461003059 GSH binding site (G-site) [chemical binding]; other site 1235461003060 dimer interface [polypeptide binding]; other site 1235461003061 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1235461003062 dimer interface [polypeptide binding]; other site 1235461003063 N-terminal domain interface [polypeptide binding]; other site 1235461003064 substrate binding pocket (H-site) [chemical binding]; other site 1235461003065 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461003066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461003067 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1235461003068 dimerization interface [polypeptide binding]; other site 1235461003069 substrate binding pocket [chemical binding]; other site 1235461003070 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461003071 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1235461003072 putative C-terminal domain interface [polypeptide binding]; other site 1235461003073 putative GSH binding site (G-site) [chemical binding]; other site 1235461003074 putative dimer interface [polypeptide binding]; other site 1235461003075 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1235461003076 dimer interface [polypeptide binding]; other site 1235461003077 N-terminal domain interface [polypeptide binding]; other site 1235461003078 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461003079 PAS fold; Region: PAS_4; pfam08448 1235461003080 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1235461003081 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1235461003082 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461003083 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461003084 metal binding site [ion binding]; metal-binding site 1235461003085 active site 1235461003086 I-site; other site 1235461003087 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461003088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461003089 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461003090 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1235461003091 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461003092 putative Zn2+ binding site [ion binding]; other site 1235461003093 putative DNA binding site [nucleotide binding]; other site 1235461003094 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1235461003095 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1235461003096 PhnA protein; Region: PhnA; pfam03831 1235461003097 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1235461003098 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1235461003099 Walker A motif; other site 1235461003100 ATP binding site [chemical binding]; other site 1235461003101 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461003102 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461003103 active site 1235461003104 catalytic tetrad [active] 1235461003105 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1235461003106 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461003107 S-adenosylmethionine binding site [chemical binding]; other site 1235461003108 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1235461003109 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461003110 motif II; other site 1235461003111 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1235461003112 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1235461003113 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 1235461003114 putative NAD(P) binding site [chemical binding]; other site 1235461003115 catalytic Zn binding site [ion binding]; other site 1235461003116 structural Zn binding site [ion binding]; other site 1235461003117 aminotransferase; Provisional; Region: PRK13356 1235461003118 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1235461003119 homodimer interface [polypeptide binding]; other site 1235461003120 substrate-cofactor binding pocket; other site 1235461003121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461003122 catalytic residue [active] 1235461003123 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1235461003124 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461003125 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1235461003126 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1235461003127 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1235461003128 Predicted transcriptional regulator [Transcription]; Region: COG2378 1235461003129 HTH domain; Region: HTH_11; pfam08279 1235461003130 WYL domain; Region: WYL; pfam13280 1235461003131 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461003132 Cytochrome c556 [Energy production and conversion]; Region: COG3909 1235461003133 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461003134 Cytochrome c; Region: Cytochrom_C; cl11414 1235461003135 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1235461003136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461003137 Coenzyme A binding pocket [chemical binding]; other site 1235461003138 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1235461003139 DNA binding residues [nucleotide binding] 1235461003140 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1235461003141 dimer interface [polypeptide binding]; other site 1235461003142 putative metal binding site [ion binding]; other site 1235461003143 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1235461003144 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1235461003145 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1235461003146 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1235461003147 Trp docking motif [polypeptide binding]; other site 1235461003148 putative active site [active] 1235461003149 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461003150 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461003151 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461003152 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1235461003153 hypothetical protein; Validated; Region: PRK00029 1235461003154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 1235461003155 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1235461003156 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1235461003157 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1235461003158 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 1235461003159 putative metal binding site [ion binding]; other site 1235461003160 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1235461003161 active site 1235461003162 metal binding site [ion binding]; metal-binding site 1235461003163 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1235461003164 Ligand Binding Site [chemical binding]; other site 1235461003165 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1235461003166 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1235461003167 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1235461003168 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1235461003169 SelR domain; Region: SelR; pfam01641 1235461003170 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 1235461003171 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1235461003172 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461003173 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1235461003174 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1235461003175 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 1235461003176 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 1235461003177 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461003178 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1235461003179 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 1235461003180 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 1235461003181 Predicted transcriptional regulator [Transcription]; Region: COG4957 1235461003182 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1235461003183 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1235461003184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461003185 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461003186 dimer interface [polypeptide binding]; other site 1235461003187 phosphorylation site [posttranslational modification] 1235461003188 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461003189 ATP binding site [chemical binding]; other site 1235461003190 Mg2+ binding site [ion binding]; other site 1235461003191 G-X-G motif; other site 1235461003192 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461003193 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461003194 Uncharacterized conserved protein [Function unknown]; Region: COG5447 1235461003195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 1235461003196 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1235461003197 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1235461003198 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1235461003199 Bacterial SH3 domain; Region: SH3_3; pfam08239 1235461003200 Predicted integral membrane protein [Function unknown]; Region: COG5436 1235461003201 Uncharacterized conserved protein [Function unknown]; Region: COG5402 1235461003202 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1235461003203 Transglycosylase; Region: Transgly; pfam00912 1235461003204 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1235461003205 hypothetical protein; Provisional; Region: PRK05170 1235461003206 Protein of unknown function (DUF419); Region: DUF419; pfam04237 1235461003207 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461003208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461003209 active site 1235461003210 phosphorylation site [posttranslational modification] 1235461003211 intermolecular recognition site; other site 1235461003212 dimerization interface [polypeptide binding]; other site 1235461003213 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461003214 DNA binding site [nucleotide binding] 1235461003215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461003216 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461003217 ATP binding site [chemical binding]; other site 1235461003218 Mg2+ binding site [ion binding]; other site 1235461003219 G-X-G motif; other site 1235461003220 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1235461003221 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1235461003222 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1235461003223 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461003224 binding surface 1235461003225 TPR motif; other site 1235461003226 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1235461003227 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1235461003228 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1235461003229 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1235461003230 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1235461003231 protein binding site [polypeptide binding]; other site 1235461003232 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1235461003233 protein binding site [polypeptide binding]; other site 1235461003234 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461003235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461003236 active site 1235461003237 phosphorylation site [posttranslational modification] 1235461003238 intermolecular recognition site; other site 1235461003239 dimerization interface [polypeptide binding]; other site 1235461003240 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461003241 DNA binding site [nucleotide binding] 1235461003242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461003243 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461003244 dimerization interface [polypeptide binding]; other site 1235461003245 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461003246 dimer interface [polypeptide binding]; other site 1235461003247 phosphorylation site [posttranslational modification] 1235461003248 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461003249 ATP binding site [chemical binding]; other site 1235461003250 Mg2+ binding site [ion binding]; other site 1235461003251 G-X-G motif; other site 1235461003252 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 1235461003253 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1235461003254 metal binding triad; other site 1235461003255 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1235461003256 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1235461003257 metal binding triad; other site 1235461003258 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461003259 PAS fold; Region: PAS_3; pfam08447 1235461003260 putative active site [active] 1235461003261 heme pocket [chemical binding]; other site 1235461003262 PAS fold; Region: PAS_7; pfam12860 1235461003263 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461003264 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461003265 dimer interface [polypeptide binding]; other site 1235461003266 phosphorylation site [posttranslational modification] 1235461003267 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461003268 ATP binding site [chemical binding]; other site 1235461003269 Mg2+ binding site [ion binding]; other site 1235461003270 G-X-G motif; other site 1235461003271 aminopeptidase N; Provisional; Region: pepN; PRK14015 1235461003272 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1235461003273 active site 1235461003274 Zn binding site [ion binding]; other site 1235461003275 EamA-like transporter family; Region: EamA; pfam00892 1235461003276 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461003277 EamA-like transporter family; Region: EamA; pfam00892 1235461003278 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461003279 putative MFS family transporter protein; Provisional; Region: PRK03633 1235461003280 putative substrate translocation pore; other site 1235461003281 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1235461003282 Fe-S cluster binding site [ion binding]; other site 1235461003283 active site 1235461003284 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1235461003285 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1235461003286 nucleotide binding site [chemical binding]; other site 1235461003287 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1235461003288 SBD interface [polypeptide binding]; other site 1235461003289 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1235461003290 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461003291 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1235461003292 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1235461003293 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1235461003294 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1235461003295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461003296 dimer interface [polypeptide binding]; other site 1235461003297 conserved gate region; other site 1235461003298 putative PBP binding loops; other site 1235461003299 ABC-ATPase subunit interface; other site 1235461003300 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1235461003301 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1235461003302 putative NAD(P) binding site [chemical binding]; other site 1235461003303 dimer interface [polypeptide binding]; other site 1235461003304 Predicted transcriptional regulators [Transcription]; Region: COG1733 1235461003305 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1235461003306 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1235461003307 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1235461003308 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1235461003309 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1235461003310 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1235461003311 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1235461003312 Ligand binding site; other site 1235461003313 Putative Catalytic site; other site 1235461003314 DXD motif; other site 1235461003315 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1235461003316 AMP nucleosidase; Provisional; Region: PRK08292 1235461003317 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1235461003318 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1235461003319 Uncharacterized conserved protein [Function unknown]; Region: COG1742 1235461003320 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1235461003321 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1235461003322 C-terminal domain interface [polypeptide binding]; other site 1235461003323 GSH binding site (G-site) [chemical binding]; other site 1235461003324 dimer interface [polypeptide binding]; other site 1235461003325 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1235461003326 N-terminal domain interface [polypeptide binding]; other site 1235461003327 putative dimer interface [polypeptide binding]; other site 1235461003328 active site 1235461003329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1235461003330 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1235461003331 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 1235461003332 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461003333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461003334 homodimer interface [polypeptide binding]; other site 1235461003335 catalytic residue [active] 1235461003336 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1235461003337 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461003338 sequence-specific DNA binding site [nucleotide binding]; other site 1235461003339 salt bridge; other site 1235461003340 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 1235461003341 Porin subfamily; Region: Porin_2; pfam02530 1235461003342 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461003343 active site 1235461003344 DNA binding site [nucleotide binding] 1235461003345 Int/Topo IB signature motif; other site 1235461003346 Porin subfamily; Region: Porin_2; pfam02530 1235461003347 CopC domain; Region: CopC; cl01012 1235461003348 BA14K-like protein; Region: BA14K; pfam07886 1235461003349 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1235461003350 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461003351 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461003352 catalytic residue [active] 1235461003353 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461003354 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1235461003355 dimer interface [polypeptide binding]; other site 1235461003356 active site 1235461003357 catalytic residue [active] 1235461003358 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 1235461003359 SmpB-tmRNA interface; other site 1235461003360 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1235461003361 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1235461003362 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1235461003363 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461003364 MULE transposase domain; Region: MULE; pfam10551 1235461003365 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1235461003366 LabA_like proteins; Region: LabA; cd10911 1235461003367 putative metal binding site [ion binding]; other site 1235461003368 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1235461003369 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1235461003370 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1235461003371 Zn2+ binding site [ion binding]; other site 1235461003372 Mg2+ binding site [ion binding]; other site 1235461003373 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1235461003374 synthetase active site [active] 1235461003375 NTP binding site [chemical binding]; other site 1235461003376 metal binding site [ion binding]; metal-binding site 1235461003377 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1235461003378 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1235461003379 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1235461003380 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1235461003381 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1235461003382 putative active site [active] 1235461003383 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 1235461003384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1235461003385 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1235461003386 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1235461003387 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1235461003388 Catalytic site [active] 1235461003389 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1235461003390 ribonuclease III; Reviewed; Region: PRK12371 1235461003391 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1235461003392 dimerization interface [polypeptide binding]; other site 1235461003393 active site 1235461003394 metal binding site [ion binding]; metal-binding site 1235461003395 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 1235461003396 dsRNA binding site [nucleotide binding]; other site 1235461003397 GTPase Era; Reviewed; Region: era; PRK00089 1235461003398 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1235461003399 G1 box; other site 1235461003400 GTP/Mg2+ binding site [chemical binding]; other site 1235461003401 Switch I region; other site 1235461003402 G2 box; other site 1235461003403 Switch II region; other site 1235461003404 G3 box; other site 1235461003405 G4 box; other site 1235461003406 G5 box; other site 1235461003407 KH domain; Region: KH_2; pfam07650 1235461003408 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1235461003409 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461003410 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1235461003411 ArsC family; Region: ArsC; pfam03960 1235461003412 catalytic residues [active] 1235461003413 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1235461003414 amphipathic channel; other site 1235461003415 Asn-Pro-Ala signature motifs; other site 1235461003416 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461003417 dimerization interface [polypeptide binding]; other site 1235461003418 putative DNA binding site [nucleotide binding]; other site 1235461003419 putative Zn2+ binding site [ion binding]; other site 1235461003420 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial homologs of mammalian glycerophosphodiester phosphodiesterase GDE4; Region: GDPD_GDE4_like_1; cd08613 1235461003421 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1235461003422 putative active site [active] 1235461003423 catalytic site [active] 1235461003424 putative metal binding site [ion binding]; other site 1235461003425 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1235461003426 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461003427 S-adenosylmethionine binding site [chemical binding]; other site 1235461003428 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1235461003429 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1235461003430 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1235461003431 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1235461003432 RNA binding site [nucleotide binding]; other site 1235461003433 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1235461003434 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1235461003435 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1235461003436 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1235461003437 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461003438 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1235461003439 putative NAD(P) binding site [chemical binding]; other site 1235461003440 active site 1235461003441 putative substrate binding site [chemical binding]; other site 1235461003442 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461003443 dimerization interface [polypeptide binding]; other site 1235461003444 putative DNA binding site [nucleotide binding]; other site 1235461003445 putative Zn2+ binding site [ion binding]; other site 1235461003446 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1235461003447 hydrophobic ligand binding site; other site 1235461003448 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1235461003449 active site 1235461003450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461003451 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461003452 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1235461003453 Recombination protein O N terminal; Region: RecO_N; pfam11967 1235461003454 Recombination protein O C terminal; Region: RecO_C; pfam02565 1235461003455 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1235461003456 Predicted membrane protein [Function unknown]; Region: COG5373 1235461003457 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1235461003458 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1235461003459 Zn2+ binding site [ion binding]; other site 1235461003460 Mg2+ binding site [ion binding]; other site 1235461003461 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1235461003462 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1235461003463 MOSC domain; Region: MOSC; pfam03473 1235461003464 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1235461003465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461003466 putative substrate translocation pore; other site 1235461003467 quinolinate synthetase; Provisional; Region: PRK09375 1235461003468 L-aspartate oxidase; Provisional; Region: PRK07512 1235461003469 L-aspartate oxidase; Provisional; Region: PRK06175 1235461003470 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1235461003471 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1235461003472 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1235461003473 dimerization interface [polypeptide binding]; other site 1235461003474 active site 1235461003475 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1235461003476 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1235461003477 E-class dimer interface [polypeptide binding]; other site 1235461003478 P-class dimer interface [polypeptide binding]; other site 1235461003479 active site 1235461003480 Cu2+ binding site [ion binding]; other site 1235461003481 Zn2+ binding site [ion binding]; other site 1235461003482 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1235461003483 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461003484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461003485 Walker A/P-loop; other site 1235461003486 ATP binding site [chemical binding]; other site 1235461003487 Q-loop/lid; other site 1235461003488 ABC transporter signature motif; other site 1235461003489 Walker B; other site 1235461003490 D-loop; other site 1235461003491 H-loop/switch region; other site 1235461003492 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1235461003493 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461003494 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461003495 ACP:hemolysin acyltransferase (hemolysin-activating protein) [Posttranslational modification, protein turnover, chaperones]; Region: HlyC; COG2994 1235461003496 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1235461003497 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1235461003498 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1235461003499 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1235461003500 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1235461003501 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461003502 Predicted secreted protein [Function unknown]; Region: COG5451 1235461003503 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 1235461003504 nudix motif; other site 1235461003505 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1235461003506 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1235461003507 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1235461003508 active site 1235461003509 HIGH motif; other site 1235461003510 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1235461003511 KMSKS motif; other site 1235461003512 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1235461003513 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461003514 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461003515 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461003516 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1235461003517 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1235461003518 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1235461003519 active site 1235461003520 catalytic residues [active] 1235461003521 metal binding site [ion binding]; metal-binding site 1235461003522 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1235461003523 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1235461003524 EamA-like transporter family; Region: EamA; cl17759 1235461003525 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1235461003526 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1235461003527 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1235461003528 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1235461003529 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461003530 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1235461003531 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1235461003532 Walker A/P-loop; other site 1235461003533 ATP binding site [chemical binding]; other site 1235461003534 Q-loop/lid; other site 1235461003535 ABC transporter signature motif; other site 1235461003536 Walker B; other site 1235461003537 D-loop; other site 1235461003538 H-loop/switch region; other site 1235461003539 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1235461003540 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1235461003541 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1235461003542 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1235461003543 classical (c) SDRs; Region: SDR_c; cd05233 1235461003544 NAD(P) binding site [chemical binding]; other site 1235461003545 active site 1235461003546 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1235461003547 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1235461003548 active site 1235461003549 tetramer interface [polypeptide binding]; other site 1235461003550 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1235461003551 active site 1235461003552 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1235461003553 Colicin V production protein; Region: Colicin_V; pfam02674 1235461003554 DNA repair protein RadA; Provisional; Region: PRK11823 1235461003555 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1235461003556 Walker A motif/ATP binding site; other site 1235461003557 ATP binding site [chemical binding]; other site 1235461003558 Walker B motif; other site 1235461003559 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1235461003560 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1235461003561 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1235461003562 active site 1235461003563 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1235461003564 dimer interface [polypeptide binding]; other site 1235461003565 substrate binding site [chemical binding]; other site 1235461003566 catalytic residues [active] 1235461003567 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1235461003568 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461003569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461003570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461003571 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1235461003572 Predicted membrane protein [Function unknown]; Region: COG4541 1235461003573 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1235461003574 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461003575 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1235461003576 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1235461003577 replicative DNA helicase; Provisional; Region: PRK09165 1235461003578 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1235461003579 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1235461003580 Walker A motif; other site 1235461003581 ATP binding site [chemical binding]; other site 1235461003582 Walker B motif; other site 1235461003583 DNA binding loops [nucleotide binding] 1235461003584 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461003585 MarR family; Region: MarR_2; pfam12802 1235461003586 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1235461003587 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461003588 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1235461003589 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461003590 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461003591 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1235461003592 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1235461003593 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1235461003594 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1235461003595 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1235461003596 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1235461003597 dimerization interface [polypeptide binding]; other site 1235461003598 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461003599 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461003600 active site 1235461003601 catalytic tetrad [active] 1235461003602 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1235461003603 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1235461003604 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1235461003605 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1235461003606 NAD(P) binding site [chemical binding]; other site 1235461003607 homotetramer interface [polypeptide binding]; other site 1235461003608 homodimer interface [polypeptide binding]; other site 1235461003609 active site 1235461003610 acyl carrier protein; Provisional; Region: acpP; PRK00982 1235461003611 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1235461003612 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1235461003613 dimer interface [polypeptide binding]; other site 1235461003614 active site 1235461003615 YceG-like family; Region: YceG; pfam02618 1235461003616 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1235461003617 dimerization interface [polypeptide binding]; other site 1235461003618 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 1235461003619 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1235461003620 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1235461003621 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1235461003622 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 1235461003623 catalytic site [active] 1235461003624 G-X2-G-X-G-K; other site 1235461003625 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1235461003626 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461003627 S-adenosylmethionine binding site [chemical binding]; other site 1235461003628 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1235461003629 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1235461003630 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1235461003631 SurA N-terminal domain; Region: SurA_N; pfam09312 1235461003632 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1235461003633 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1235461003634 Predicted permeases [General function prediction only]; Region: COG0795 1235461003635 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1235461003636 Predicted permeases [General function prediction only]; Region: COG0795 1235461003637 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1235461003638 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1235461003639 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1235461003640 interface (dimer of trimers) [polypeptide binding]; other site 1235461003641 Substrate-binding/catalytic site; other site 1235461003642 Zn-binding sites [ion binding]; other site 1235461003643 DNA polymerase III subunit chi; Validated; Region: PRK05728 1235461003644 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1235461003645 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461003646 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1235461003647 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1235461003648 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461003649 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461003650 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461003651 Coenzyme A binding pocket [chemical binding]; other site 1235461003652 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1235461003653 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461003654 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461003655 ABC transporter; Region: ABC_tran_2; pfam12848 1235461003656 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461003657 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1235461003658 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1235461003659 acyl-activating enzyme (AAE) consensus motif; other site 1235461003660 AMP binding site [chemical binding]; other site 1235461003661 active site 1235461003662 CoA binding site [chemical binding]; other site 1235461003663 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1235461003664 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1235461003665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1235461003666 DinB superfamily; Region: DinB_2; pfam12867 1235461003667 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 1235461003668 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461003669 putative C-terminal domain interface [polypeptide binding]; other site 1235461003670 putative GSH binding site (G-site) [chemical binding]; other site 1235461003671 putative dimer interface [polypeptide binding]; other site 1235461003672 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 1235461003673 putative N-terminal domain interface [polypeptide binding]; other site 1235461003674 putative dimer interface [polypeptide binding]; other site 1235461003675 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461003676 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1235461003677 active site 1235461003678 multimer interface [polypeptide binding]; other site 1235461003679 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 1235461003680 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1235461003681 CGNR zinc finger; Region: zf-CGNR; pfam11706 1235461003682 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1235461003683 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461003684 TM-ABC transporter signature motif; other site 1235461003685 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1235461003686 MoaE homodimer interface [polypeptide binding]; other site 1235461003687 MoaD interaction [polypeptide binding]; other site 1235461003688 active site residues [active] 1235461003689 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1235461003690 MoaE interaction surface [polypeptide binding]; other site 1235461003691 MoeB interaction surface [polypeptide binding]; other site 1235461003692 thiocarboxylated glycine; other site 1235461003693 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1235461003694 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1235461003695 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1235461003696 GIY-YIG motif/motif A; other site 1235461003697 active site 1235461003698 catalytic site [active] 1235461003699 putative DNA binding site [nucleotide binding]; other site 1235461003700 metal binding site [ion binding]; metal-binding site 1235461003701 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1235461003702 short chain dehydrogenase; Provisional; Region: PRK09134 1235461003703 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1235461003704 NADP binding site [chemical binding]; other site 1235461003705 substrate binding pocket [chemical binding]; other site 1235461003706 active site 1235461003707 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1235461003708 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461003709 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1235461003710 putative C-terminal domain interface [polypeptide binding]; other site 1235461003711 putative GSH binding site (G-site) [chemical binding]; other site 1235461003712 putative dimer interface [polypeptide binding]; other site 1235461003713 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1235461003714 N-terminal domain interface [polypeptide binding]; other site 1235461003715 dimer interface [polypeptide binding]; other site 1235461003716 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461003717 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 1235461003718 B1 nucleotide binding pocket [chemical binding]; other site 1235461003719 B2 nucleotide binding pocket [chemical binding]; other site 1235461003720 CAS motifs; other site 1235461003721 active site 1235461003722 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1235461003723 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1235461003724 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1235461003725 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 1235461003726 putative [4Fe-4S] binding site [ion binding]; other site 1235461003727 putative molybdopterin cofactor binding site [chemical binding]; other site 1235461003728 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 1235461003729 putative molybdopterin cofactor binding site; other site 1235461003730 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1235461003731 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1235461003732 dimer interface [polypeptide binding]; other site 1235461003733 ADP-ribose binding site [chemical binding]; other site 1235461003734 active site 1235461003735 nudix motif; other site 1235461003736 metal binding site [ion binding]; metal-binding site 1235461003737 Predicted integral membrane protein [Function unknown]; Region: COG0392 1235461003738 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1235461003739 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1235461003740 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1235461003741 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1235461003742 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1235461003743 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1235461003744 active site 1235461003745 substrate binding site [chemical binding]; other site 1235461003746 cosubstrate binding site; other site 1235461003747 catalytic site [active] 1235461003748 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1235461003749 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1235461003750 dimerization interface [polypeptide binding]; other site 1235461003751 putative ATP binding site [chemical binding]; other site 1235461003752 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1235461003753 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1235461003754 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1235461003755 hypothetical protein; Validated; Region: PRK09087 1235461003756 polyphosphate kinase; Provisional; Region: PRK05443 1235461003757 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1235461003758 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1235461003759 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1235461003760 putative domain interface [polypeptide binding]; other site 1235461003761 putative active site [active] 1235461003762 catalytic site [active] 1235461003763 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1235461003764 putative domain interface [polypeptide binding]; other site 1235461003765 putative active site [active] 1235461003766 catalytic site [active] 1235461003767 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1235461003768 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1235461003769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 1235461003770 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461003771 cyclase homology domain; Region: CHD; cd07302 1235461003772 nucleotidyl binding site; other site 1235461003773 metal binding site [ion binding]; metal-binding site 1235461003774 dimer interface [polypeptide binding]; other site 1235461003775 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1235461003776 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1235461003777 catalytic site [active] 1235461003778 putative active site [active] 1235461003779 putative substrate binding site [chemical binding]; other site 1235461003780 HRDC domain; Region: HRDC; pfam00570 1235461003781 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1235461003782 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1235461003783 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1235461003784 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1235461003785 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461003786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461003787 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461003788 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461003789 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461003790 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461003791 putative substrate translocation pore; other site 1235461003792 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1235461003793 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1235461003794 dimer interface [polypeptide binding]; other site 1235461003795 anticodon binding site; other site 1235461003796 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1235461003797 homodimer interface [polypeptide binding]; other site 1235461003798 motif 1; other site 1235461003799 active site 1235461003800 motif 2; other site 1235461003801 GAD domain; Region: GAD; pfam02938 1235461003802 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1235461003803 active site 1235461003804 motif 3; other site 1235461003805 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 1235461003806 active site 1235461003807 catalytic residue [active] 1235461003808 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1235461003809 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1235461003810 ring oligomerisation interface [polypeptide binding]; other site 1235461003811 ATP/Mg binding site [chemical binding]; other site 1235461003812 stacking interactions; other site 1235461003813 hinge regions; other site 1235461003814 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1235461003815 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1235461003816 CAP-like domain; other site 1235461003817 active site 1235461003818 primary dimer interface [polypeptide binding]; other site 1235461003819 EamA-like transporter family; Region: EamA; cl17759 1235461003820 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1235461003821 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 1235461003822 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1235461003823 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1235461003824 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1235461003825 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1235461003826 dimer interface [polypeptide binding]; other site 1235461003827 allosteric magnesium binding site [ion binding]; other site 1235461003828 active site 1235461003829 aspartate-rich active site metal binding site; other site 1235461003830 Schiff base residues; other site 1235461003831 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1235461003832 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1235461003833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1235461003834 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461003835 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461003836 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461003837 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1235461003838 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1235461003839 dimer interface [polypeptide binding]; other site 1235461003840 active site 1235461003841 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1235461003842 folate binding site [chemical binding]; other site 1235461003843 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1235461003844 ATP cone domain; Region: ATP-cone; pfam03477 1235461003845 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1235461003846 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1235461003847 catalytic motif [active] 1235461003848 Zn binding site [ion binding]; other site 1235461003849 RibD C-terminal domain; Region: RibD_C; cl17279 1235461003850 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1235461003851 Lumazine binding domain; Region: Lum_binding; pfam00677 1235461003852 Lumazine binding domain; Region: Lum_binding; pfam00677 1235461003853 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1235461003854 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 1235461003855 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1235461003856 homopentamer interface [polypeptide binding]; other site 1235461003857 active site 1235461003858 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1235461003859 putative RNA binding site [nucleotide binding]; other site 1235461003860 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1235461003861 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 1235461003862 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1235461003863 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1235461003864 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1235461003865 Uncharacterized conserved protein [Function unknown]; Region: COG5452 1235461003866 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1235461003867 putative phosphate acyltransferase; Provisional; Region: PRK05331 1235461003868 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1235461003869 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1235461003870 dimer interface [polypeptide binding]; other site 1235461003871 active site 1235461003872 CoA binding pocket [chemical binding]; other site 1235461003873 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1235461003874 IHF dimer interface [polypeptide binding]; other site 1235461003875 IHF - DNA interface [nucleotide binding]; other site 1235461003876 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1235461003877 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1235461003878 DNA binding residues [nucleotide binding] 1235461003879 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1235461003880 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461003881 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1235461003882 O-Antigen ligase; Region: Wzy_C; pfam04932 1235461003883 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1235461003884 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1235461003885 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1235461003886 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461003887 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1235461003888 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1235461003889 SLBB domain; Region: SLBB; pfam10531 1235461003890 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1235461003891 Chain length determinant protein; Region: Wzz; cl15801 1235461003892 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1235461003893 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1235461003894 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 1235461003895 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 1235461003896 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1235461003897 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1235461003898 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1235461003899 trimer interface [polypeptide binding]; other site 1235461003900 active site 1235461003901 substrate binding site [chemical binding]; other site 1235461003902 CoA binding site [chemical binding]; other site 1235461003903 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461003904 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1235461003905 active site 1235461003906 metal binding site [ion binding]; metal-binding site 1235461003907 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 1235461003908 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1235461003909 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1235461003910 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1235461003911 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1235461003912 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1235461003913 agmatinase; Region: agmatinase; TIGR01230 1235461003914 oligomer interface [polypeptide binding]; other site 1235461003915 putative active site [active] 1235461003916 Mn binding site [ion binding]; other site 1235461003917 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1235461003918 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 1235461003919 23S rRNA interface [nucleotide binding]; other site 1235461003920 L3 interface [polypeptide binding]; other site 1235461003921 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1235461003922 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1235461003923 CoenzymeA binding site [chemical binding]; other site 1235461003924 subunit interaction site [polypeptide binding]; other site 1235461003925 PHB binding site; other site 1235461003926 enoyl-CoA hydratase; Validated; Region: PRK08139 1235461003927 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461003928 substrate binding site [chemical binding]; other site 1235461003929 oxyanion hole (OAH) forming residues; other site 1235461003930 trimer interface [polypeptide binding]; other site 1235461003931 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1235461003932 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1235461003933 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 1235461003934 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1235461003935 homodimer interface [polypeptide binding]; other site 1235461003936 substrate-cofactor binding pocket; other site 1235461003937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461003938 catalytic residue [active] 1235461003939 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1235461003940 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1235461003941 Cytochrome P450; Region: p450; cl12078 1235461003942 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1235461003943 putative catalytic site [active] 1235461003944 putative metal binding site [ion binding]; other site 1235461003945 putative phosphate binding site [ion binding]; other site 1235461003946 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1235461003947 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1235461003948 putative active site [active] 1235461003949 catalytic site [active] 1235461003950 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1235461003951 putative active site [active] 1235461003952 catalytic site [active] 1235461003953 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1235461003954 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1235461003955 oligomer interface [polypeptide binding]; other site 1235461003956 active site residues [active] 1235461003957 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1235461003958 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1235461003959 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461003960 Walker A motif; other site 1235461003961 ATP binding site [chemical binding]; other site 1235461003962 Walker B motif; other site 1235461003963 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1235461003964 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1235461003965 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1235461003966 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1235461003967 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461003968 Walker A motif; other site 1235461003969 ATP binding site [chemical binding]; other site 1235461003970 Walker B motif; other site 1235461003971 arginine finger; other site 1235461003972 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1235461003973 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1235461003974 IHF dimer interface [polypeptide binding]; other site 1235461003975 IHF - DNA interface [nucleotide binding]; other site 1235461003976 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1235461003977 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461003978 MarR family; Region: MarR; pfam01047 1235461003979 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1235461003980 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1235461003981 active site 1235461003982 metal binding site [ion binding]; metal-binding site 1235461003983 DNA binding site [nucleotide binding] 1235461003984 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1235461003985 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1235461003986 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1235461003987 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1235461003988 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1235461003989 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1235461003990 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1235461003991 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1235461003992 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1235461003993 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1235461003994 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1235461003995 putative dimer interface [polypeptide binding]; other site 1235461003996 [2Fe-2S] cluster binding site [ion binding]; other site 1235461003997 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1235461003998 SLBB domain; Region: SLBB; pfam10531 1235461003999 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1235461004000 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1235461004001 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1235461004002 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461004003 catalytic loop [active] 1235461004004 iron binding site [ion binding]; other site 1235461004005 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1235461004006 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 1235461004007 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1235461004008 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1235461004009 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1235461004010 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1235461004011 4Fe-4S binding domain; Region: Fer4; pfam00037 1235461004012 4Fe-4S binding domain; Region: Fer4; pfam00037 1235461004013 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1235461004014 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1235461004015 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1235461004016 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1235461004017 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1235461004018 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1235461004019 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461004020 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1235461004021 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461004022 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1235461004023 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461004024 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1235461004025 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1235461004026 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1235461004027 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1235461004028 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461004029 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1235461004030 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461004031 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1235461004032 dimer interface [polypeptide binding]; other site 1235461004033 substrate binding site [chemical binding]; other site 1235461004034 metal binding site [ion binding]; metal-binding site 1235461004035 Predicted secreted protein [Function unknown]; Region: COG5454 1235461004036 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1235461004037 oligomeric interface; other site 1235461004038 putative active site [active] 1235461004039 homodimer interface [polypeptide binding]; other site 1235461004040 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 1235461004041 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1235461004042 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1235461004043 dimer interface [polypeptide binding]; other site 1235461004044 motif 1; other site 1235461004045 active site 1235461004046 motif 2; other site 1235461004047 motif 3; other site 1235461004048 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1235461004049 anticodon binding site; other site 1235461004050 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1235461004051 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1235461004052 FtsX-like permease family; Region: FtsX; pfam02687 1235461004053 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1235461004054 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1235461004055 Walker A/P-loop; other site 1235461004056 ATP binding site [chemical binding]; other site 1235461004057 Q-loop/lid; other site 1235461004058 ABC transporter signature motif; other site 1235461004059 Walker B; other site 1235461004060 D-loop; other site 1235461004061 H-loop/switch region; other site 1235461004062 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1235461004063 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1235461004064 putative active site [active] 1235461004065 putative PHP Thumb interface [polypeptide binding]; other site 1235461004066 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1235461004067 generic binding surface II; other site 1235461004068 generic binding surface I; other site 1235461004069 hypothetical protein; Provisional; Region: PRK06132 1235461004070 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461004071 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461004072 DNA polymerase IV; Provisional; Region: PRK02794 1235461004073 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1235461004074 active site 1235461004075 DNA binding site [nucleotide binding] 1235461004076 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 1235461004077 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461004078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461004079 active site 1235461004080 phosphorylation site [posttranslational modification] 1235461004081 intermolecular recognition site; other site 1235461004082 dimerization interface [polypeptide binding]; other site 1235461004083 response regulator PleD; Reviewed; Region: pleD; PRK09581 1235461004084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461004085 active site 1235461004086 phosphorylation site [posttranslational modification] 1235461004087 intermolecular recognition site; other site 1235461004088 dimerization interface [polypeptide binding]; other site 1235461004089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461004090 active site 1235461004091 phosphorylation site [posttranslational modification] 1235461004092 intermolecular recognition site; other site 1235461004093 dimerization interface [polypeptide binding]; other site 1235461004094 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461004095 metal binding site [ion binding]; metal-binding site 1235461004096 active site 1235461004097 I-site; other site 1235461004098 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1235461004099 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461004100 putative substrate translocation pore; other site 1235461004101 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461004102 hypothetical protein; Provisional; Region: PRK05978 1235461004103 ribonuclease R; Region: RNase_R; TIGR02063 1235461004104 RNB domain; Region: RNB; pfam00773 1235461004105 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1235461004106 RNA binding site [nucleotide binding]; other site 1235461004107 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1235461004108 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1235461004109 active site 1235461004110 interdomain interaction site; other site 1235461004111 putative metal-binding site [ion binding]; other site 1235461004112 nucleotide binding site [chemical binding]; other site 1235461004113 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1235461004114 domain I; other site 1235461004115 DNA binding groove [nucleotide binding] 1235461004116 phosphate binding site [ion binding]; other site 1235461004117 domain II; other site 1235461004118 domain III; other site 1235461004119 nucleotide binding site [chemical binding]; other site 1235461004120 catalytic site [active] 1235461004121 domain IV; other site 1235461004122 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1235461004123 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1235461004124 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1235461004125 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1235461004126 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1235461004127 DNA protecting protein DprA; Region: dprA; TIGR00732 1235461004128 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1235461004129 dihydroorotase; Validated; Region: PRK09059 1235461004130 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1235461004131 active site 1235461004132 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1235461004133 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1235461004134 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1235461004135 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1235461004136 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1235461004137 active site 1235461004138 Predicted permeases [General function prediction only]; Region: COG0679 1235461004139 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1235461004140 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1235461004141 metal-dependent hydrolase; Provisional; Region: PRK00685 1235461004142 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1235461004143 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1235461004144 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1235461004145 hypothetical protein; Provisional; Region: PRK13687 1235461004146 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1235461004147 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1235461004148 GatB domain; Region: GatB_Yqey; smart00845 1235461004149 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1235461004150 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461004151 Coenzyme A binding pocket [chemical binding]; other site 1235461004152 NADH dehydrogenase; Validated; Region: PRK08183 1235461004153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1235461004154 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1235461004155 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1235461004156 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1235461004157 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1235461004158 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1235461004159 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1235461004160 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1235461004161 carboxyltransferase (CT) interaction site; other site 1235461004162 biotinylation site [posttranslational modification]; other site 1235461004163 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1235461004164 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1235461004165 trimer interface [polypeptide binding]; other site 1235461004166 active site 1235461004167 dimer interface [polypeptide binding]; other site 1235461004168 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1235461004169 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1235461004170 catalytic residues [active] 1235461004171 aspartate aminotransferase; Provisional; Region: PRK05764 1235461004172 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461004173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461004174 homodimer interface [polypeptide binding]; other site 1235461004175 catalytic residue [active] 1235461004176 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1235461004177 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1235461004178 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1235461004179 AMIN domain; Region: AMIN; pfam11741 1235461004180 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1235461004181 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1235461004182 active site 1235461004183 metal binding site [ion binding]; metal-binding site 1235461004184 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1235461004185 Transglycosylase; Region: Transgly; pfam00912 1235461004186 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1235461004187 peptide chain release factor 2; Provisional; Region: PRK07342 1235461004188 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1235461004189 RF-1 domain; Region: RF-1; pfam00472 1235461004190 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1235461004191 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1235461004192 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1235461004193 dimer interface [polypeptide binding]; other site 1235461004194 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461004195 ligand binding site [chemical binding]; other site 1235461004196 LysR family transcriptional regulator; Provisional; Region: PRK14997 1235461004197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461004198 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1235461004199 putative effector binding pocket; other site 1235461004200 putative dimerization interface [polypeptide binding]; other site 1235461004201 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1235461004202 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461004203 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1235461004204 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1235461004205 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1235461004206 elongation factor Tu; Reviewed; Region: PRK00049 1235461004207 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1235461004208 G1 box; other site 1235461004209 GEF interaction site [polypeptide binding]; other site 1235461004210 GTP/Mg2+ binding site [chemical binding]; other site 1235461004211 Switch I region; other site 1235461004212 G2 box; other site 1235461004213 G3 box; other site 1235461004214 Switch II region; other site 1235461004215 G4 box; other site 1235461004216 G5 box; other site 1235461004217 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1235461004218 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1235461004219 Antibiotic Binding Site [chemical binding]; other site 1235461004220 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461004221 extended (e) SDRs; Region: SDR_e; cd08946 1235461004222 NAD(P) binding site [chemical binding]; other site 1235461004223 active site 1235461004224 substrate binding site [chemical binding]; other site 1235461004225 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1235461004226 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1235461004227 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1235461004228 putative homodimer interface [polypeptide binding]; other site 1235461004229 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1235461004230 heterodimer interface [polypeptide binding]; other site 1235461004231 homodimer interface [polypeptide binding]; other site 1235461004232 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1235461004233 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 1235461004234 23S rRNA interface [nucleotide binding]; other site 1235461004235 L7/L12 interface [polypeptide binding]; other site 1235461004236 putative thiostrepton binding site; other site 1235461004237 L25 interface [polypeptide binding]; other site 1235461004238 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 1235461004239 mRNA/rRNA interface [nucleotide binding]; other site 1235461004240 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 1235461004241 23S rRNA interface [nucleotide binding]; other site 1235461004242 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1235461004243 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1235461004244 core dimer interface [polypeptide binding]; other site 1235461004245 peripheral dimer interface [polypeptide binding]; other site 1235461004246 L10 interface [polypeptide binding]; other site 1235461004247 L11 interface [polypeptide binding]; other site 1235461004248 putative EF-Tu interaction site [polypeptide binding]; other site 1235461004249 putative EF-G interaction site [polypeptide binding]; other site 1235461004250 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1235461004251 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1235461004252 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1235461004253 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1235461004254 RPB11 interaction site [polypeptide binding]; other site 1235461004255 RPB12 interaction site [polypeptide binding]; other site 1235461004256 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1235461004257 RPB1 interaction site [polypeptide binding]; other site 1235461004258 RPB11 interaction site [polypeptide binding]; other site 1235461004259 RPB10 interaction site [polypeptide binding]; other site 1235461004260 RPB3 interaction site [polypeptide binding]; other site 1235461004261 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1235461004262 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1235461004263 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1235461004264 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1235461004265 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1235461004266 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1235461004267 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1235461004268 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1235461004269 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 1235461004270 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1235461004271 DNA binding site [nucleotide binding] 1235461004272 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1235461004273 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1235461004274 S17 interaction site [polypeptide binding]; other site 1235461004275 S8 interaction site; other site 1235461004276 16S rRNA interaction site [nucleotide binding]; other site 1235461004277 streptomycin interaction site [chemical binding]; other site 1235461004278 23S rRNA interaction site [nucleotide binding]; other site 1235461004279 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1235461004280 30S ribosomal protein S7; Validated; Region: PRK05302 1235461004281 elongation factor G; Reviewed; Region: PRK00007 1235461004282 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1235461004283 G1 box; other site 1235461004284 putative GEF interaction site [polypeptide binding]; other site 1235461004285 GTP/Mg2+ binding site [chemical binding]; other site 1235461004286 Switch I region; other site 1235461004287 G2 box; other site 1235461004288 G3 box; other site 1235461004289 Switch II region; other site 1235461004290 G4 box; other site 1235461004291 G5 box; other site 1235461004292 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1235461004293 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1235461004294 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1235461004295 elongation factor Tu; Reviewed; Region: PRK00049 1235461004296 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1235461004297 G1 box; other site 1235461004298 GEF interaction site [polypeptide binding]; other site 1235461004299 GTP/Mg2+ binding site [chemical binding]; other site 1235461004300 Switch I region; other site 1235461004301 G2 box; other site 1235461004302 G3 box; other site 1235461004303 Switch II region; other site 1235461004304 G4 box; other site 1235461004305 G5 box; other site 1235461004306 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1235461004307 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1235461004308 Antibiotic Binding Site [chemical binding]; other site 1235461004309 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1235461004310 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1235461004311 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1235461004312 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1235461004313 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1235461004314 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1235461004315 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1235461004316 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1235461004317 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 1235461004318 putative translocon binding site; other site 1235461004319 protein-rRNA interface [nucleotide binding]; other site 1235461004320 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1235461004321 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 1235461004322 G-X-X-G motif; other site 1235461004323 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1235461004324 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 1235461004325 23S rRNA interface [nucleotide binding]; other site 1235461004326 5S rRNA interface [nucleotide binding]; other site 1235461004327 putative antibiotic binding site [chemical binding]; other site 1235461004328 L25 interface [polypeptide binding]; other site 1235461004329 L27 interface [polypeptide binding]; other site 1235461004330 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1235461004331 23S rRNA interface [nucleotide binding]; other site 1235461004332 putative translocon interaction site; other site 1235461004333 signal recognition particle (SRP54) interaction site; other site 1235461004334 L23 interface [polypeptide binding]; other site 1235461004335 trigger factor interaction site; other site 1235461004336 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1235461004337 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1235461004338 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1235461004339 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1235461004340 RNA binding site [nucleotide binding]; other site 1235461004341 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1235461004342 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1235461004343 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1235461004344 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1235461004345 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1235461004346 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1235461004347 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1235461004348 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1235461004349 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 1235461004350 23S rRNA interface [nucleotide binding]; other site 1235461004351 L21e interface [polypeptide binding]; other site 1235461004352 5S rRNA interface [nucleotide binding]; other site 1235461004353 L27 interface [polypeptide binding]; other site 1235461004354 L5 interface [polypeptide binding]; other site 1235461004355 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1235461004356 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1235461004357 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1235461004358 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1235461004359 23S rRNA binding site [nucleotide binding]; other site 1235461004360 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1235461004361 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1235461004362 SecY translocase; Region: SecY; pfam00344 1235461004363 adenylate kinase; Reviewed; Region: adk; PRK00279 1235461004364 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 1235461004365 AMP-binding site [chemical binding]; other site 1235461004366 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1235461004367 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1235461004368 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1235461004369 30S ribosomal protein S11; Validated; Region: PRK05309 1235461004370 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1235461004371 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1235461004372 alphaNTD homodimer interface [polypeptide binding]; other site 1235461004373 alphaNTD - beta interaction site [polypeptide binding]; other site 1235461004374 alphaNTD - beta' interaction site [polypeptide binding]; other site 1235461004375 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1235461004376 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1235461004377 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1235461004378 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1235461004379 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1235461004380 Moco binding site; other site 1235461004381 metal coordination site [ion binding]; other site 1235461004382 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1235461004383 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1235461004384 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1235461004385 protein binding site [polypeptide binding]; other site 1235461004386 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1235461004387 protein binding site [polypeptide binding]; other site 1235461004388 recombination factor protein RarA; Reviewed; Region: PRK13342 1235461004389 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461004390 Walker A motif; other site 1235461004391 ATP binding site [chemical binding]; other site 1235461004392 Walker B motif; other site 1235461004393 arginine finger; other site 1235461004394 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1235461004395 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1235461004396 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 1235461004397 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1235461004398 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461004399 motif II; other site 1235461004400 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1235461004401 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 1235461004402 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1235461004403 active site 1235461004404 camphor resistance protein CrcB; Provisional; Region: PRK14195 1235461004405 S-formylglutathione hydrolase; Region: PLN02442 1235461004406 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1235461004407 Predicted membrane protein [Function unknown]; Region: COG4291 1235461004408 hypothetical protein; Validated; Region: PRK00124 1235461004409 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1235461004410 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1235461004411 substrate binding site [chemical binding]; other site 1235461004412 catalytic Zn binding site [ion binding]; other site 1235461004413 NAD binding site [chemical binding]; other site 1235461004414 structural Zn binding site [ion binding]; other site 1235461004415 dimer interface [polypeptide binding]; other site 1235461004416 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461004417 non-specific DNA binding site [nucleotide binding]; other site 1235461004418 salt bridge; other site 1235461004419 sequence-specific DNA binding site [nucleotide binding]; other site 1235461004420 lipoate-protein ligase B; Provisional; Region: PRK14341 1235461004421 PrkA family serine protein kinase; Provisional; Region: PRK15455 1235461004422 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1235461004423 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1235461004424 Uncharacterized conserved protein [Function unknown]; Region: COG2718 1235461004425 SpoVR family protein; Provisional; Region: PRK11767 1235461004426 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1235461004427 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1235461004428 active site 1235461004429 catalytic residues [active] 1235461004430 metal binding site [ion binding]; metal-binding site 1235461004431 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1235461004432 MgtE intracellular N domain; Region: MgtE_N; smart00924 1235461004433 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1235461004434 Divalent cation transporter; Region: MgtE; cl00786 1235461004435 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1235461004436 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1235461004437 DNA binding residues [nucleotide binding] 1235461004438 putative dimer interface [polypeptide binding]; other site 1235461004439 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1235461004440 Predicted membrane protein [Function unknown]; Region: COG3503 1235461004441 Predicted membrane protein [Function unknown]; Region: COG3821 1235461004442 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1235461004443 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1235461004444 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1235461004445 Uncharacterized conserved protein [Function unknown]; Region: COG5458 1235461004446 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1235461004447 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1235461004448 Sporulation related domain; Region: SPOR; pfam05036 1235461004449 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1235461004450 PilZ domain; Region: PilZ; pfam07238 1235461004451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 1235461004452 PAS domain; Region: PAS_5; pfam07310 1235461004453 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1235461004454 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 1235461004455 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1235461004456 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1235461004457 nucleophile elbow; other site 1235461004458 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1235461004459 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1235461004460 GTP cyclohydrolase I; Provisional; Region: PLN03044 1235461004461 active site 1235461004462 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1235461004463 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1235461004464 trimerization site [polypeptide binding]; other site 1235461004465 active site 1235461004466 hypothetical protein; Validated; Region: PRK00041 1235461004467 Uncharacterized conserved protein [Function unknown]; Region: COG5502 1235461004468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 1235461004469 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1235461004470 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1235461004471 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1235461004472 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 1235461004473 active site 1235461004474 dimer interface [polypeptide binding]; other site 1235461004475 motif 1; other site 1235461004476 motif 2; other site 1235461004477 motif 3; other site 1235461004478 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1235461004479 anticodon binding site; other site 1235461004480 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1235461004481 putative FMN binding site [chemical binding]; other site 1235461004482 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1235461004483 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1235461004484 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1235461004485 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461004486 Coenzyme A binding pocket [chemical binding]; other site 1235461004487 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1235461004488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461004489 Mg2+ binding site [ion binding]; other site 1235461004490 G-X-G motif; other site 1235461004491 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1235461004492 anchoring element; other site 1235461004493 dimer interface [polypeptide binding]; other site 1235461004494 ATP binding site [chemical binding]; other site 1235461004495 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1235461004496 active site 1235461004497 metal binding site [ion binding]; metal-binding site 1235461004498 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1235461004499 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1235461004500 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1235461004501 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461004502 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1235461004503 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1235461004504 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1235461004505 triosephosphate isomerase; Provisional; Region: PRK14565 1235461004506 substrate binding site [chemical binding]; other site 1235461004507 dimer interface [polypeptide binding]; other site 1235461004508 catalytic triad [active] 1235461004509 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1235461004510 CTP synthetase; Validated; Region: pyrG; PRK05380 1235461004511 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 1235461004512 Catalytic site [active] 1235461004513 active site 1235461004514 UTP binding site [chemical binding]; other site 1235461004515 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1235461004516 active site 1235461004517 putative oxyanion hole; other site 1235461004518 catalytic triad [active] 1235461004519 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1235461004520 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1235461004521 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1235461004522 enolase; Provisional; Region: eno; PRK00077 1235461004523 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1235461004524 dimer interface [polypeptide binding]; other site 1235461004525 metal binding site [ion binding]; metal-binding site 1235461004526 substrate binding pocket [chemical binding]; other site 1235461004527 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1235461004528 Septum formation initiator; Region: DivIC; pfam04977 1235461004529 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1235461004530 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1235461004531 tetramer interface [polypeptide binding]; other site 1235461004532 TPP-binding site [chemical binding]; other site 1235461004533 heterodimer interface [polypeptide binding]; other site 1235461004534 phosphorylation loop region [posttranslational modification] 1235461004535 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1235461004536 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1235461004537 E3 interaction surface; other site 1235461004538 lipoyl attachment site [posttranslational modification]; other site 1235461004539 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1235461004540 alpha subunit interface [polypeptide binding]; other site 1235461004541 TPP binding site [chemical binding]; other site 1235461004542 heterodimer interface [polypeptide binding]; other site 1235461004543 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1235461004544 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1235461004545 E3 interaction surface; other site 1235461004546 lipoyl attachment site [posttranslational modification]; other site 1235461004547 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 1235461004548 e3 binding domain; Region: E3_binding; pfam02817 1235461004549 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1235461004550 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 1235461004551 active site 1235461004552 catalytic triad [active] 1235461004553 oxyanion hole [active] 1235461004554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461004555 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1235461004556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1235461004557 Coenzyme A binding pocket [chemical binding]; other site 1235461004558 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1235461004559 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1235461004560 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461004561 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1235461004562 Predicted membrane protein [Function unknown]; Region: COG2261 1235461004563 lipoyl synthase; Provisional; Region: PRK05481 1235461004564 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461004565 FeS/SAM binding site; other site 1235461004566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461004567 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461004568 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461004569 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1235461004570 putative coenzyme Q binding site [chemical binding]; other site 1235461004571 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1235461004572 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1235461004573 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1235461004574 substrate binding site; other site 1235461004575 dimer interface; other site 1235461004576 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 1235461004577 homotrimer interaction site [polypeptide binding]; other site 1235461004578 zinc binding site [ion binding]; other site 1235461004579 CDP-binding sites; other site 1235461004580 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1235461004581 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 1235461004582 FMN binding site [chemical binding]; other site 1235461004583 active site 1235461004584 catalytic residues [active] 1235461004585 substrate binding site [chemical binding]; other site 1235461004586 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1235461004587 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461004588 dimer interface [polypeptide binding]; other site 1235461004589 phosphorylation site [posttranslational modification] 1235461004590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461004591 ATP binding site [chemical binding]; other site 1235461004592 Mg2+ binding site [ion binding]; other site 1235461004593 G-X-G motif; other site 1235461004594 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1235461004595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461004596 active site 1235461004597 phosphorylation site [posttranslational modification] 1235461004598 intermolecular recognition site; other site 1235461004599 dimerization interface [polypeptide binding]; other site 1235461004600 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461004601 Walker A motif; other site 1235461004602 ATP binding site [chemical binding]; other site 1235461004603 Walker B motif; other site 1235461004604 arginine finger; other site 1235461004605 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1235461004606 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1235461004607 HAMP domain; Region: HAMP; pfam00672 1235461004608 dimerization interface [polypeptide binding]; other site 1235461004609 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461004610 dimer interface [polypeptide binding]; other site 1235461004611 phosphorylation site [posttranslational modification] 1235461004612 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461004613 ATP binding site [chemical binding]; other site 1235461004614 Mg2+ binding site [ion binding]; other site 1235461004615 G-X-G motif; other site 1235461004616 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1235461004617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461004618 active site 1235461004619 phosphorylation site [posttranslational modification] 1235461004620 intermolecular recognition site; other site 1235461004621 dimerization interface [polypeptide binding]; other site 1235461004622 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461004623 Walker A motif; other site 1235461004624 ATP binding site [chemical binding]; other site 1235461004625 Walker B motif; other site 1235461004626 arginine finger; other site 1235461004627 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1235461004628 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1235461004629 TrkA-N domain; Region: TrkA_N; pfam02254 1235461004630 TrkA-C domain; Region: TrkA_C; pfam02080 1235461004631 TrkA-N domain; Region: TrkA_N; pfam02254 1235461004632 TrkA-C domain; Region: TrkA_C; pfam02080 1235461004633 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1235461004634 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1235461004635 homodimer interface [polypeptide binding]; other site 1235461004636 substrate-cofactor binding pocket; other site 1235461004637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461004638 catalytic residue [active] 1235461004639 bacterial Hfq-like; Region: Hfq; cd01716 1235461004640 hexamer interface [polypeptide binding]; other site 1235461004641 Sm1 motif; other site 1235461004642 RNA binding site [nucleotide binding]; other site 1235461004643 Sm2 motif; other site 1235461004644 GTPases [General function prediction only]; Region: HflX; COG2262 1235461004645 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1235461004646 HflX GTPase family; Region: HflX; cd01878 1235461004647 G1 box; other site 1235461004648 GTP/Mg2+ binding site [chemical binding]; other site 1235461004649 Switch I region; other site 1235461004650 G2 box; other site 1235461004651 G3 box; other site 1235461004652 Switch II region; other site 1235461004653 G4 box; other site 1235461004654 G5 box; other site 1235461004655 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1235461004656 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1235461004657 homodimer interface [polypeptide binding]; other site 1235461004658 metal binding site [ion binding]; metal-binding site 1235461004659 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1235461004660 homodimer interface [polypeptide binding]; other site 1235461004661 active site 1235461004662 putative chemical substrate binding site [chemical binding]; other site 1235461004663 metal binding site [ion binding]; metal-binding site 1235461004664 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1235461004665 nucleoside/Zn binding site; other site 1235461004666 dimer interface [polypeptide binding]; other site 1235461004667 catalytic motif [active] 1235461004668 siroheme synthase; Provisional; Region: cysG; PRK10637 1235461004669 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1235461004670 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1235461004671 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1235461004672 active site 1235461004673 SAM binding site [chemical binding]; other site 1235461004674 homodimer interface [polypeptide binding]; other site 1235461004675 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 1235461004676 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1235461004677 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1235461004678 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1235461004679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1235461004680 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1235461004681 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1235461004682 FAD binding pocket [chemical binding]; other site 1235461004683 FAD binding motif [chemical binding]; other site 1235461004684 phosphate binding motif [ion binding]; other site 1235461004685 beta-alpha-beta structure motif; other site 1235461004686 NAD binding pocket [chemical binding]; other site 1235461004687 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461004688 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1235461004689 Walker A/P-loop; other site 1235461004690 ATP binding site [chemical binding]; other site 1235461004691 Q-loop/lid; other site 1235461004692 ABC transporter signature motif; other site 1235461004693 Walker B; other site 1235461004694 D-loop; other site 1235461004695 H-loop/switch region; other site 1235461004696 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461004697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461004698 dimer interface [polypeptide binding]; other site 1235461004699 conserved gate region; other site 1235461004700 putative PBP binding loops; other site 1235461004701 ABC-ATPase subunit interface; other site 1235461004702 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1235461004703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461004704 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461004705 dimer interface [polypeptide binding]; other site 1235461004706 conserved gate region; other site 1235461004707 putative PBP binding loops; other site 1235461004708 ABC-ATPase subunit interface; other site 1235461004709 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1235461004710 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461004711 substrate binding pocket [chemical binding]; other site 1235461004712 membrane-bound complex binding site; other site 1235461004713 hinge residues; other site 1235461004714 cystathionine beta-lyase; Provisional; Region: PRK05967 1235461004715 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1235461004716 homodimer interface [polypeptide binding]; other site 1235461004717 substrate-cofactor binding pocket; other site 1235461004718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461004719 catalytic residue [active] 1235461004720 salicylate hydroxylase; Provisional; Region: PRK08163 1235461004721 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1235461004722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1235461004723 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461004724 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461004725 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1235461004726 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1235461004727 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 1235461004728 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1235461004729 trimer interface [polypeptide binding]; other site 1235461004730 active site 1235461004731 substrate binding site [chemical binding]; other site 1235461004732 CoA binding site [chemical binding]; other site 1235461004733 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1235461004734 Phasin protein; Region: Phasin_2; pfam09361 1235461004735 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1235461004736 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1235461004737 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461004738 Walker A motif; other site 1235461004739 ATP binding site [chemical binding]; other site 1235461004740 Walker B motif; other site 1235461004741 arginine finger; other site 1235461004742 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461004743 Walker A motif; other site 1235461004744 ATP binding site [chemical binding]; other site 1235461004745 Walker B motif; other site 1235461004746 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1235461004747 AzlC protein; Region: AzlC; pfam03591 1235461004748 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1235461004749 HIT family signature motif; other site 1235461004750 catalytic residue [active] 1235461004751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 1235461004752 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1235461004753 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 1235461004754 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1235461004755 putative active site [active] 1235461004756 catalytic site [active] 1235461004757 putative metal binding site [ion binding]; other site 1235461004758 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1235461004759 homotrimer interaction site [polypeptide binding]; other site 1235461004760 putative active site [active] 1235461004761 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1235461004762 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1235461004763 rRNA interaction site [nucleotide binding]; other site 1235461004764 S8 interaction site; other site 1235461004765 putative laminin-1 binding site; other site 1235461004766 elongation factor Ts; Provisional; Region: tsf; PRK09377 1235461004767 UBA/TS-N domain; Region: UBA; pfam00627 1235461004768 Elongation factor TS; Region: EF_TS; pfam00889 1235461004769 Elongation factor TS; Region: EF_TS; pfam00889 1235461004770 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 1235461004771 putative nucleotide binding site [chemical binding]; other site 1235461004772 uridine monophosphate binding site [chemical binding]; other site 1235461004773 homohexameric interface [polypeptide binding]; other site 1235461004774 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1235461004775 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1235461004776 hinge region; other site 1235461004777 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 1235461004778 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1235461004779 catalytic residue [active] 1235461004780 putative FPP diphosphate binding site; other site 1235461004781 putative FPP binding hydrophobic cleft; other site 1235461004782 dimer interface [polypeptide binding]; other site 1235461004783 putative IPP diphosphate binding site; other site 1235461004784 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1235461004785 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1235461004786 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1235461004787 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1235461004788 active site 1235461004789 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1235461004790 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1235461004791 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1235461004792 putative substrate binding region [chemical binding]; other site 1235461004793 putative substrate binding region [chemical binding]; other site 1235461004794 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1235461004795 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1235461004796 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1235461004797 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1235461004798 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1235461004799 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1235461004800 Surface antigen; Region: Bac_surface_Ag; pfam01103 1235461004801 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1235461004802 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1235461004803 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1235461004804 trimer interface [polypeptide binding]; other site 1235461004805 active site 1235461004806 UDP-GlcNAc binding site [chemical binding]; other site 1235461004807 lipid binding site [chemical binding]; lipid-binding site 1235461004808 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1235461004809 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1235461004810 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1235461004811 active site 1235461004812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1235461004813 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 1235461004814 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1235461004815 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 1235461004816 GIY-YIG motif/motif A; other site 1235461004817 putative active site [active] 1235461004818 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1235461004819 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1235461004820 dimer interface [polypeptide binding]; other site 1235461004821 active site 1235461004822 citrylCoA binding site [chemical binding]; other site 1235461004823 NADH binding [chemical binding]; other site 1235461004824 cationic pore residues; other site 1235461004825 oxalacetate/citrate binding site [chemical binding]; other site 1235461004826 coenzyme A binding site [chemical binding]; other site 1235461004827 catalytic triad [active] 1235461004828 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1235461004829 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1235461004830 Competence protein; Region: Competence; pfam03772 1235461004831 tonB-system energizer ExbB; Region: exbB; TIGR02797 1235461004832 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1235461004833 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1235461004834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461004835 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461004836 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461004837 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1235461004838 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1235461004839 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461004840 S-adenosylmethionine binding site [chemical binding]; other site 1235461004841 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1235461004842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1235461004843 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1235461004844 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1235461004845 HIGH motif; other site 1235461004846 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1235461004847 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1235461004848 active site 1235461004849 KMSKS motif; other site 1235461004850 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1235461004851 tRNA binding surface [nucleotide binding]; other site 1235461004852 anticodon binding site; other site 1235461004853 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1235461004854 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1235461004855 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1235461004856 Sel1-like repeats; Region: SEL1; smart00671 1235461004857 Sel1-like repeats; Region: SEL1; smart00671 1235461004858 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1235461004859 putative catalytic site [active] 1235461004860 putative phosphate binding site [ion binding]; other site 1235461004861 active site 1235461004862 metal binding site A [ion binding]; metal-binding site 1235461004863 DNA binding site [nucleotide binding] 1235461004864 putative AP binding site [nucleotide binding]; other site 1235461004865 putative metal binding site B [ion binding]; other site 1235461004866 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1235461004867 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1235461004868 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1235461004869 putative active site [active] 1235461004870 catalytic site [active] 1235461004871 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1235461004872 putative active site [active] 1235461004873 catalytic site [active] 1235461004874 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1235461004875 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1235461004876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1235461004877 Zn2+ binding site [ion binding]; other site 1235461004878 Mg2+ binding site [ion binding]; other site 1235461004879 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1235461004880 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1235461004881 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1235461004882 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1235461004883 active site 1235461004884 HIGH motif; other site 1235461004885 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1235461004886 KMSK motif region; other site 1235461004887 tRNA binding surface [nucleotide binding]; other site 1235461004888 DALR anticodon binding domain; Region: DALR_1; smart00836 1235461004889 anticodon binding site; other site 1235461004890 Sporulation related domain; Region: SPOR; pfam05036 1235461004891 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1235461004892 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1235461004893 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1235461004894 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1235461004895 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461004896 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1235461004897 Walker A/P-loop; other site 1235461004898 ATP binding site [chemical binding]; other site 1235461004899 Q-loop/lid; other site 1235461004900 ABC transporter signature motif; other site 1235461004901 Walker B; other site 1235461004902 D-loop; other site 1235461004903 H-loop/switch region; other site 1235461004904 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 1235461004905 sec-independent translocase; Provisional; Region: PRK00708 1235461004906 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1235461004907 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1235461004908 seryl-tRNA synthetase; Provisional; Region: PRK05431 1235461004909 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1235461004910 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1235461004911 dimer interface [polypeptide binding]; other site 1235461004912 active site 1235461004913 motif 1; other site 1235461004914 motif 2; other site 1235461004915 motif 3; other site 1235461004916 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1235461004917 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1235461004918 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461004919 S-adenosylmethionine binding site [chemical binding]; other site 1235461004920 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1235461004921 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1235461004922 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1235461004923 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1235461004924 Peptidase family M23; Region: Peptidase_M23; pfam01551 1235461004925 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1235461004926 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461004927 Walker A motif; other site 1235461004928 ATP binding site [chemical binding]; other site 1235461004929 Walker B motif; other site 1235461004930 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 1235461004931 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 1235461004932 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1235461004933 Protein export membrane protein; Region: SecD_SecF; cl14618 1235461004934 Protein export membrane protein; Region: SecD_SecF; pfam02355 1235461004935 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 1235461004936 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 1235461004937 substrate binding pocket [chemical binding]; other site 1235461004938 aspartate-rich region 1; other site 1235461004939 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1235461004940 Glucose inhibited division protein A; Region: GIDA; pfam01134 1235461004941 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1235461004942 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1235461004943 trigger factor; Provisional; Region: tig; PRK01490 1235461004944 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1235461004945 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1235461004946 glycine dehydrogenase; Provisional; Region: PRK05367 1235461004947 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1235461004948 tetramer interface [polypeptide binding]; other site 1235461004949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461004950 catalytic residue [active] 1235461004951 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1235461004952 tetramer interface [polypeptide binding]; other site 1235461004953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461004954 catalytic residue [active] 1235461004955 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1235461004956 lipoyl attachment site [posttranslational modification]; other site 1235461004957 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1235461004958 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461004959 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1235461004960 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1235461004961 CRISPR-associated protein, Csx11 family; Region: cas_csx11; TIGR02682 1235461004962 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1235461004963 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461004964 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1235461004965 dimer interface [polypeptide binding]; other site 1235461004966 N-terminal domain interface [polypeptide binding]; other site 1235461004967 substrate binding pocket (H-site) [chemical binding]; other site 1235461004968 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 1235461004969 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1235461004970 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1235461004971 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1235461004972 active site 1235461004973 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1235461004974 TSCPD domain; Region: TSCPD; pfam12637 1235461004975 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1235461004976 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1235461004977 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1235461004978 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1235461004979 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1235461004980 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1235461004981 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1235461004982 dimer interface [polypeptide binding]; other site 1235461004983 ssDNA binding site [nucleotide binding]; other site 1235461004984 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1235461004985 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1235461004986 DNA gyrase subunit A; Validated; Region: PRK05560 1235461004987 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1235461004988 CAP-like domain; other site 1235461004989 active site 1235461004990 primary dimer interface [polypeptide binding]; other site 1235461004991 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1235461004992 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1235461004993 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1235461004994 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1235461004995 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1235461004996 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1235461004997 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461004998 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461004999 catalytic residue [active] 1235461005000 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1235461005001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461005002 Coenzyme A binding pocket [chemical binding]; other site 1235461005003 Streptomycin 6-kinase [Defense mechanisms]; Region: StrB; COG3570 1235461005004 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1235461005005 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1235461005006 FMN binding site [chemical binding]; other site 1235461005007 active site 1235461005008 substrate binding site [chemical binding]; other site 1235461005009 catalytic residue [active] 1235461005010 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461005011 dimerization interface [polypeptide binding]; other site 1235461005012 putative DNA binding site [nucleotide binding]; other site 1235461005013 putative Zn2+ binding site [ion binding]; other site 1235461005014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461005015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461005016 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461005017 putative effector binding pocket; other site 1235461005018 dimerization interface [polypeptide binding]; other site 1235461005019 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1235461005020 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461005021 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461005022 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461005023 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461005024 putative DNA binding site [nucleotide binding]; other site 1235461005025 putative Zn2+ binding site [ion binding]; other site 1235461005026 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461005027 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1235461005028 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1235461005029 putative metal binding site; other site 1235461005030 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461005031 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1235461005032 putative ADP-binding pocket [chemical binding]; other site 1235461005033 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461005034 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1235461005035 putative ADP-binding pocket [chemical binding]; other site 1235461005036 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1235461005037 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461005038 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1235461005039 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1235461005040 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1235461005041 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461005042 putative substrate translocation pore; other site 1235461005043 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1235461005044 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1235461005045 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1235461005046 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1235461005047 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1235461005048 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1235461005049 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1235461005050 IMP binding site; other site 1235461005051 dimer interface [polypeptide binding]; other site 1235461005052 partial ornithine binding site; other site 1235461005053 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461005054 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 1235461005055 putative NAD(P) binding site [chemical binding]; other site 1235461005056 catalytic Zn binding site [ion binding]; other site 1235461005057 Predicted metalloprotease [General function prediction only]; Region: COG2321 1235461005058 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1235461005059 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461005060 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461005061 putative substrate translocation pore; other site 1235461005062 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1235461005063 putative efflux protein, MATE family; Region: matE; TIGR00797 1235461005064 cation binding site [ion binding]; other site 1235461005065 Protein of unknown function DUF86; Region: DUF86; cl01031 1235461005066 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1235461005067 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1235461005068 active site 1235461005069 (T/H)XGH motif; other site 1235461005070 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1235461005071 active site 1235461005072 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1235461005073 active site 1235461005074 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1235461005075 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1235461005076 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1235461005077 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1235461005078 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461005079 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461005080 substrate binding pocket [chemical binding]; other site 1235461005081 membrane-bound complex binding site; other site 1235461005082 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1235461005083 classical (c) SDRs; Region: SDR_c; cd05233 1235461005084 NAD(P) binding site [chemical binding]; other site 1235461005085 active site 1235461005086 SEC-C motif; Region: SEC-C; pfam02810 1235461005087 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1235461005088 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1235461005089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461005090 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461005091 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461005092 classical (c) SDRs; Region: SDR_c; cd05233 1235461005093 NAD(P) binding site [chemical binding]; other site 1235461005094 active site 1235461005095 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461005096 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461005097 putative substrate translocation pore; other site 1235461005098 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1235461005099 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461005100 DNA binding site [nucleotide binding] 1235461005101 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461005102 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461005103 TPR motif; other site 1235461005104 binding surface 1235461005105 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461005106 TPR motif; other site 1235461005107 binding surface 1235461005108 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461005109 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1235461005110 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461005111 DNA-binding interface [nucleotide binding]; DNA binding site 1235461005112 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461005113 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461005114 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461005115 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461005116 Integrase core domain; Region: rve; pfam00665 1235461005117 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461005118 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461005119 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461005120 Integrase core domain; Region: rve; pfam00665 1235461005121 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1235461005122 putative hydrolase; Provisional; Region: PRK02113 1235461005123 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1235461005124 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1235461005125 active site 1235461005126 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1235461005127 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1235461005128 active site 1235461005129 HIGH motif; other site 1235461005130 KMSKS motif; other site 1235461005131 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1235461005132 tRNA binding surface [nucleotide binding]; other site 1235461005133 anticodon binding site; other site 1235461005134 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria; Region: NTP-PPase_u1; cd11538 1235461005135 metal binding site [ion binding]; metal-binding site 1235461005136 DNA polymerase III subunit delta'; Validated; Region: PRK09112 1235461005137 AAA ATPase domain; Region: AAA_16; pfam13191 1235461005138 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1235461005139 Peptidase family M23; Region: Peptidase_M23; pfam01551 1235461005140 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1235461005141 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1235461005142 TMP-binding site; other site 1235461005143 ATP-binding site [chemical binding]; other site 1235461005144 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1235461005145 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1235461005146 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1235461005147 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1235461005148 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1235461005149 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461005150 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461005151 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1235461005152 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461005153 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461005154 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1235461005155 LexA repressor; Validated; Region: PRK00215 1235461005156 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1235461005157 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1235461005158 Catalytic site [active] 1235461005159 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1235461005160 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1235461005161 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1235461005162 putative active site [active] 1235461005163 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1235461005164 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1235461005165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461005166 short chain dehydrogenase; Provisional; Region: PRK06101 1235461005167 NAD(P) binding site [chemical binding]; other site 1235461005168 active site 1235461005169 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1235461005170 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1235461005171 dimer interface [polypeptide binding]; other site 1235461005172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461005173 catalytic residue [active] 1235461005174 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1235461005175 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1235461005176 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1235461005177 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1235461005178 active site residue [active] 1235461005179 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1235461005180 active site residue [active] 1235461005181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1235461005182 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 1235461005183 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1235461005184 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1235461005185 hexamer interface [polypeptide binding]; other site 1235461005186 ligand binding site [chemical binding]; other site 1235461005187 putative active site [active] 1235461005188 NAD(P) binding site [chemical binding]; other site 1235461005189 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461005190 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461005191 putative DNA binding site [nucleotide binding]; other site 1235461005192 putative Zn2+ binding site [ion binding]; other site 1235461005193 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461005194 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1235461005195 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1235461005196 active site 1235461005197 metal binding site [ion binding]; metal-binding site 1235461005198 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1235461005199 Uncharacterized conserved protein [Function unknown]; Region: COG5453 1235461005200 threonine dehydratase; Validated; Region: PRK08639 1235461005201 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1235461005202 tetramer interface [polypeptide binding]; other site 1235461005203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461005204 catalytic residue [active] 1235461005205 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1235461005206 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1235461005207 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1235461005208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1235461005209 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1235461005210 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461005211 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1235461005212 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1235461005213 putative MPT binding site; other site 1235461005214 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1235461005215 active site 1235461005216 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1235461005217 putative carbohydrate kinase; Provisional; Region: PRK10565 1235461005218 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1235461005219 putative substrate binding site [chemical binding]; other site 1235461005220 putative ATP binding site [chemical binding]; other site 1235461005221 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1235461005222 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1235461005223 glutamine synthetase; Provisional; Region: glnA; PRK09469 1235461005224 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1235461005225 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1235461005226 Uncharacterized conserved protein [Function unknown]; Region: COG3785 1235461005227 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1235461005228 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1235461005229 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1235461005230 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1235461005231 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1235461005232 catalytic residues [active] 1235461005233 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1235461005234 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461005235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461005236 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1235461005237 Sulfatase; Region: Sulfatase; pfam00884 1235461005238 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 1235461005239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1235461005240 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1235461005241 putative catalytic site [active] 1235461005242 putative phosphate binding site [ion binding]; other site 1235461005243 active site 1235461005244 metal binding site A [ion binding]; metal-binding site 1235461005245 DNA binding site [nucleotide binding] 1235461005246 putative AP binding site [nucleotide binding]; other site 1235461005247 putative metal binding site B [ion binding]; other site 1235461005248 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1235461005249 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1235461005250 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461005251 ATP binding site [chemical binding]; other site 1235461005252 putative Mg++ binding site [ion binding]; other site 1235461005253 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461005254 nucleotide binding region [chemical binding]; other site 1235461005255 ATP-binding site [chemical binding]; other site 1235461005256 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1235461005257 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1235461005258 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1235461005259 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1235461005260 generic binding surface II; other site 1235461005261 ssDNA binding site; other site 1235461005262 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461005263 ATP binding site [chemical binding]; other site 1235461005264 putative Mg++ binding site [ion binding]; other site 1235461005265 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461005266 nucleotide binding region [chemical binding]; other site 1235461005267 ATP-binding site [chemical binding]; other site 1235461005268 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1235461005269 putative acetyltransferase; Provisional; Region: PRK03624 1235461005270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461005271 Coenzyme A binding pocket [chemical binding]; other site 1235461005272 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1235461005273 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1235461005274 glutaminase active site [active] 1235461005275 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1235461005276 dimer interface [polypeptide binding]; other site 1235461005277 active site 1235461005278 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1235461005279 dimer interface [polypeptide binding]; other site 1235461005280 active site 1235461005281 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1235461005282 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1235461005283 Substrate binding site; other site 1235461005284 Mg++ binding site; other site 1235461005285 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1235461005286 active site 1235461005287 substrate binding site [chemical binding]; other site 1235461005288 CoA binding site [chemical binding]; other site 1235461005289 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1235461005290 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1235461005291 PhoU domain; Region: PhoU; pfam01895 1235461005292 PhoU domain; Region: PhoU; pfam01895 1235461005293 SurA N-terminal domain; Region: SurA_N_3; cl07813 1235461005294 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1235461005295 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1235461005296 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1235461005297 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1235461005298 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1235461005299 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1235461005300 active site 1235461005301 ribulose/triose binding site [chemical binding]; other site 1235461005302 phosphate binding site [ion binding]; other site 1235461005303 substrate (anthranilate) binding pocket [chemical binding]; other site 1235461005304 product (indole) binding pocket [chemical binding]; other site 1235461005305 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1235461005306 trimer interface [polypeptide binding]; other site 1235461005307 dimer interface [polypeptide binding]; other site 1235461005308 putative active site [active] 1235461005309 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1235461005310 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1235461005311 dimer interface [polypeptide binding]; other site 1235461005312 putative functional site; other site 1235461005313 putative MPT binding site; other site 1235461005314 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1235461005315 Domain of unknown function DUF21; Region: DUF21; pfam01595 1235461005316 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1235461005317 Transporter associated domain; Region: CorC_HlyC; smart01091 1235461005318 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461005319 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461005320 DNA-binding site [nucleotide binding]; DNA binding site 1235461005321 FCD domain; Region: FCD; pfam07729 1235461005322 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1235461005323 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1235461005324 putative ligand binding site [chemical binding]; other site 1235461005325 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461005326 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461005327 TM-ABC transporter signature motif; other site 1235461005328 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461005329 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461005330 TM-ABC transporter signature motif; other site 1235461005331 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1235461005332 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461005333 Walker A/P-loop; other site 1235461005334 ATP binding site [chemical binding]; other site 1235461005335 Q-loop/lid; other site 1235461005336 ABC transporter signature motif; other site 1235461005337 Walker B; other site 1235461005338 D-loop; other site 1235461005339 H-loop/switch region; other site 1235461005340 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461005341 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1235461005342 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1235461005343 NADP binding site [chemical binding]; other site 1235461005344 dimer interface [polypeptide binding]; other site 1235461005345 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1235461005346 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1235461005347 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 1235461005348 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1235461005349 Predicted permeases [General function prediction only]; Region: COG0679 1235461005350 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1235461005351 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1235461005352 peptide chain release factor 1; Provisional; Region: PRK04011 1235461005353 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1235461005354 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1235461005355 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461005356 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1235461005357 conserved cys residue [active] 1235461005358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461005359 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1235461005360 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cl00720 1235461005361 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461005362 classical (c) SDRs; Region: SDR_c; cd05233 1235461005363 NAD(P) binding site [chemical binding]; other site 1235461005364 active site 1235461005365 acyl-CoA synthetase; Validated; Region: PRK07470 1235461005366 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1235461005367 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1235461005368 acyl-activating enzyme (AAE) consensus motif; other site 1235461005369 acyl-activating enzyme (AAE) consensus motif; other site 1235461005370 putative AMP binding site [chemical binding]; other site 1235461005371 putative active site [active] 1235461005372 putative CoA binding site [chemical binding]; other site 1235461005373 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 1235461005374 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1235461005375 active site 1235461005376 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1235461005377 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1235461005378 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461005379 classical (c) SDRs; Region: SDR_c; cd05233 1235461005380 NAD(P) binding site [chemical binding]; other site 1235461005381 active site 1235461005382 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461005383 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1235461005384 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461005385 DctM-like transporters; Region: DctM; pfam06808 1235461005386 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461005387 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1235461005388 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461005389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461005390 NAD(P) binding site [chemical binding]; other site 1235461005391 active site 1235461005392 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1235461005393 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1235461005394 PYR/PP interface [polypeptide binding]; other site 1235461005395 dimer interface [polypeptide binding]; other site 1235461005396 TPP binding site [chemical binding]; other site 1235461005397 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1235461005398 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1235461005399 TPP-binding site [chemical binding]; other site 1235461005400 dimer interface [polypeptide binding]; other site 1235461005401 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461005402 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1235461005403 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461005404 DctM-like transporters; Region: DctM; pfam06808 1235461005405 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461005406 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1235461005407 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1235461005408 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461005409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461005410 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1235461005411 dimerization interface [polypeptide binding]; other site 1235461005412 substrate binding pocket [chemical binding]; other site 1235461005413 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461005414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461005415 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461005416 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461005417 putative active site [active] 1235461005418 putative NTP binding site [chemical binding]; other site 1235461005419 putative nucleic acid binding site [nucleotide binding]; other site 1235461005420 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461005421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461005422 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461005423 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461005424 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1235461005425 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1235461005426 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1235461005427 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461005428 catalytic residue [active] 1235461005429 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461005430 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461005431 putative DNA binding site [nucleotide binding]; other site 1235461005432 putative Zn2+ binding site [ion binding]; other site 1235461005433 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461005434 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 1235461005435 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1235461005436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1235461005437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461005438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461005439 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1235461005440 substrate binding pocket [chemical binding]; other site 1235461005441 dimerization interface [polypeptide binding]; other site 1235461005442 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461005443 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1235461005444 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1235461005445 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461005446 DNA-binding site [nucleotide binding]; DNA binding site 1235461005447 RNA-binding motif; other site 1235461005448 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461005449 DNA-binding site [nucleotide binding]; DNA binding site 1235461005450 RNA-binding motif; other site 1235461005451 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461005452 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1235461005453 dimer interface [polypeptide binding]; other site 1235461005454 active site 1235461005455 metal binding site [ion binding]; metal-binding site 1235461005456 glutathione binding site [chemical binding]; other site 1235461005457 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1235461005458 Peptidase M15; Region: Peptidase_M15_3; pfam08291 1235461005459 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1235461005460 DHH family; Region: DHH; pfam01368 1235461005461 DHHA1 domain; Region: DHHA1; pfam02272 1235461005462 homoserine dehydrogenase; Provisional; Region: PRK06349 1235461005463 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1235461005464 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1235461005465 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1235461005466 aminotransferase; Validated; Region: PRK09148 1235461005467 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461005468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461005469 homodimer interface [polypeptide binding]; other site 1235461005470 catalytic residue [active] 1235461005471 Short C-terminal domain; Region: SHOCT; pfam09851 1235461005472 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1235461005473 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1235461005474 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1235461005475 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1235461005476 active site 1235461005477 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1235461005478 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1235461005479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461005480 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461005481 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1235461005482 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 1235461005483 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1235461005484 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1235461005485 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1235461005486 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461005487 catalytic residue [active] 1235461005488 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1235461005489 FeS assembly protein SufD; Region: sufD; TIGR01981 1235461005490 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1235461005491 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1235461005492 Walker A/P-loop; other site 1235461005493 ATP binding site [chemical binding]; other site 1235461005494 Q-loop/lid; other site 1235461005495 ABC transporter signature motif; other site 1235461005496 Walker B; other site 1235461005497 D-loop; other site 1235461005498 H-loop/switch region; other site 1235461005499 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1235461005500 putative ABC transporter; Region: ycf24; CHL00085 1235461005501 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1235461005502 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1235461005503 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461005504 catalytic residue [active] 1235461005505 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1235461005506 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 1235461005507 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1235461005508 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1235461005509 active site 1235461005510 HIGH motif; other site 1235461005511 dimer interface [polypeptide binding]; other site 1235461005512 KMSKS motif; other site 1235461005513 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1235461005514 RNA binding surface [nucleotide binding]; other site 1235461005515 Protein of unknown function; Region: DUF3971; pfam13116 1235461005516 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1235461005517 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1235461005518 catalytic triad [active] 1235461005519 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1235461005520 dinuclear metal binding motif [ion binding]; other site 1235461005521 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1235461005522 Peptidase family M23; Region: Peptidase_M23; pfam01551 1235461005523 helicase 45; Provisional; Region: PTZ00424 1235461005524 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1235461005525 ATP binding site [chemical binding]; other site 1235461005526 Mg++ binding site [ion binding]; other site 1235461005527 motif III; other site 1235461005528 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461005529 nucleotide binding region [chemical binding]; other site 1235461005530 ATP-binding site [chemical binding]; other site 1235461005531 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_20; cd04679 1235461005532 nudix motif; other site 1235461005533 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1235461005534 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1235461005535 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1235461005536 putative MPT binding site; other site 1235461005537 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1235461005538 Ligand binding site; other site 1235461005539 metal-binding site 1235461005540 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1235461005541 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1235461005542 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1235461005543 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1235461005544 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1235461005545 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1235461005546 metal ion-dependent adhesion site (MIDAS); other site 1235461005547 MoxR-like ATPases [General function prediction only]; Region: COG0714 1235461005548 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461005549 Walker A motif; other site 1235461005550 ATP binding site [chemical binding]; other site 1235461005551 Walker B motif; other site 1235461005552 arginine finger; other site 1235461005553 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1235461005554 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1235461005555 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1235461005556 ligand binding site [chemical binding]; other site 1235461005557 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 1235461005558 putative active site pocket [active] 1235461005559 cleavage site 1235461005560 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1235461005561 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1235461005562 substrate binding site [chemical binding]; other site 1235461005563 hexamer interface [polypeptide binding]; other site 1235461005564 metal binding site [ion binding]; metal-binding site 1235461005565 Predicted secreted protein [Function unknown]; Region: COG5497 1235461005566 DZF domain; Region: DZF; cl02675 1235461005567 adenylosuccinate lyase; Provisional; Region: PRK07492 1235461005568 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1235461005569 tetramer interface [polypeptide binding]; other site 1235461005570 active site 1235461005571 PilZ domain; Region: PilZ; cl01260 1235461005572 Predicted integral membrane protein [Function unknown]; Region: COG5473 1235461005573 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1235461005574 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461005575 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461005576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461005577 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1235461005578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461005579 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461005580 dimerization interface [polypeptide binding]; other site 1235461005581 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1235461005582 hypothetical protein; Provisional; Region: PRK09262 1235461005583 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1235461005584 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 1235461005585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1235461005586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1235461005587 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1235461005588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1235461005589 Uncharacterized conserved protein [Function unknown]; Region: COG5467 1235461005590 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1235461005591 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1235461005592 ATP binding site [chemical binding]; other site 1235461005593 active site 1235461005594 substrate binding site [chemical binding]; other site 1235461005595 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1235461005596 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1235461005597 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1235461005598 putative active site [active] 1235461005599 catalytic triad [active] 1235461005600 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1235461005601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461005602 DNA-binding site [nucleotide binding]; DNA binding site 1235461005603 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461005604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461005605 homodimer interface [polypeptide binding]; other site 1235461005606 catalytic residue [active] 1235461005607 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1235461005608 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1235461005609 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1235461005610 dimerization interface [polypeptide binding]; other site 1235461005611 ATP binding site [chemical binding]; other site 1235461005612 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1235461005613 dimerization interface [polypeptide binding]; other site 1235461005614 ATP binding site [chemical binding]; other site 1235461005615 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1235461005616 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1235461005617 putative GSH binding site [chemical binding]; other site 1235461005618 catalytic residues [active] 1235461005619 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1235461005620 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461005621 putative substrate translocation pore; other site 1235461005622 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461005623 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1235461005624 putative substrate translocation pore; other site 1235461005625 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 1235461005626 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461005627 active site 1235461005628 putative lithium-binding site [ion binding]; other site 1235461005629 substrate binding site [chemical binding]; other site 1235461005630 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1235461005631 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1235461005632 Ligand Binding Site [chemical binding]; other site 1235461005633 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1235461005634 glutaminase; Provisional; Region: PRK00971 1235461005635 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1235461005636 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1235461005637 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1235461005638 RNA binding surface [nucleotide binding]; other site 1235461005639 Domain of unknown function DUF87; Region: DUF87; pfam01935 1235461005640 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1235461005641 glutamate racemase; Provisional; Region: PRK00865 1235461005642 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1235461005643 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1235461005644 Predicted membrane protein [Function unknown]; Region: COG1289 1235461005645 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1235461005646 isocitrate dehydrogenase; Validated; Region: PRK08299 1235461005647 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1235461005648 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461005649 Protein involved in beta-1,3-glucan synthesis [Carbohydrate transport and metabolism]; Region: SMI1; COG4282 1235461005650 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461005651 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461005652 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1235461005653 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461005654 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461005655 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1235461005656 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1235461005657 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1235461005658 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1235461005659 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1235461005660 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1235461005661 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1235461005662 motif 1; other site 1235461005663 active site 1235461005664 motif 2; other site 1235461005665 motif 3; other site 1235461005666 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1235461005667 recombinase A; Provisional; Region: recA; PRK09354 1235461005668 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 1235461005669 hexamer interface [polypeptide binding]; other site 1235461005670 Walker A motif; other site 1235461005671 ATP binding site [chemical binding]; other site 1235461005672 Walker B motif; other site 1235461005673 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461005674 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 1235461005675 substrate binding site [chemical binding]; other site 1235461005676 ATP binding site [chemical binding]; other site 1235461005677 Uncharacterized enzyme involved in pigment biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IndA; COG2313 1235461005678 PAS domain; Region: PAS; smart00091 1235461005679 PAS domain; Region: PAS_9; pfam13426 1235461005680 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461005681 PAS domain; Region: PAS; smart00091 1235461005682 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461005683 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461005684 dimer interface [polypeptide binding]; other site 1235461005685 phosphorylation site [posttranslational modification] 1235461005686 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461005687 ATP binding site [chemical binding]; other site 1235461005688 Mg2+ binding site [ion binding]; other site 1235461005689 G-X-G motif; other site 1235461005690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461005691 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461005692 active site 1235461005693 phosphorylation site [posttranslational modification] 1235461005694 intermolecular recognition site; other site 1235461005695 dimerization interface [polypeptide binding]; other site 1235461005696 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1235461005697 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1235461005698 catalytic core [active] 1235461005699 Predicted ATPase [General function prediction only]; Region: COG3106 1235461005700 Predicted membrane protein [Function unknown]; Region: COG3768 1235461005701 Domain of unknown function (DUF697); Region: DUF697; cl12064 1235461005702 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1235461005703 catalytic center binding site [active] 1235461005704 ATP binding site [chemical binding]; other site 1235461005705 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1235461005706 homooctamer interface [polypeptide binding]; other site 1235461005707 active site 1235461005708 dihydropteroate synthase; Region: DHPS; TIGR01496 1235461005709 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1235461005710 substrate binding pocket [chemical binding]; other site 1235461005711 dimer interface [polypeptide binding]; other site 1235461005712 inhibitor binding site; inhibition site 1235461005713 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 1235461005714 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1235461005715 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461005716 catalytic loop [active] 1235461005717 iron binding site [ion binding]; other site 1235461005718 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461005719 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461005720 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461005721 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461005722 putative active site [active] 1235461005723 putative NTP binding site [chemical binding]; other site 1235461005724 putative nucleic acid binding site [nucleotide binding]; other site 1235461005725 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461005726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461005727 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461005728 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461005729 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1235461005730 cytochrome b; Provisional; Region: CYTB; MTH00191 1235461005731 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1235461005732 Qi binding site; other site 1235461005733 intrachain domain interface; other site 1235461005734 interchain domain interface [polypeptide binding]; other site 1235461005735 heme bH binding site [chemical binding]; other site 1235461005736 heme bL binding site [chemical binding]; other site 1235461005737 Qo binding site; other site 1235461005738 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 1235461005739 interchain domain interface [polypeptide binding]; other site 1235461005740 intrachain domain interface; other site 1235461005741 Qi binding site; other site 1235461005742 Qo binding site; other site 1235461005743 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1235461005744 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1235461005745 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1235461005746 [2Fe-2S] cluster binding site [ion binding]; other site 1235461005747 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1235461005748 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461005749 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1235461005750 Walker A/P-loop; other site 1235461005751 ATP binding site [chemical binding]; other site 1235461005752 Q-loop/lid; other site 1235461005753 ABC transporter signature motif; other site 1235461005754 Walker B; other site 1235461005755 D-loop; other site 1235461005756 H-loop/switch region; other site 1235461005757 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1235461005758 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461005759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461005760 Walker A/P-loop; other site 1235461005761 ATP binding site [chemical binding]; other site 1235461005762 Q-loop/lid; other site 1235461005763 ABC transporter signature motif; other site 1235461005764 Walker B; other site 1235461005765 D-loop; other site 1235461005766 H-loop/switch region; other site 1235461005767 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1235461005768 Predicted flavoprotein [General function prediction only]; Region: COG0431 1235461005769 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461005770 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1235461005771 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1235461005772 DNA binding residues [nucleotide binding] 1235461005773 dimer interface [polypeptide binding]; other site 1235461005774 [2Fe-2S] cluster binding site [ion binding]; other site 1235461005775 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461005776 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1235461005777 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 1235461005778 Predicted transcriptional regulator [Transcription]; Region: COG3636 1235461005779 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 1235461005780 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1235461005781 mce related protein; Region: MCE; pfam02470 1235461005782 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1235461005783 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1235461005784 Walker A/P-loop; other site 1235461005785 ATP binding site [chemical binding]; other site 1235461005786 Q-loop/lid; other site 1235461005787 ABC transporter signature motif; other site 1235461005788 Walker B; other site 1235461005789 D-loop; other site 1235461005790 H-loop/switch region; other site 1235461005791 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1235461005792 Permease; Region: Permease; pfam02405 1235461005793 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1235461005794 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1235461005795 active site 1235461005796 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461005797 putative substrate translocation pore; other site 1235461005798 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1235461005799 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461005800 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1235461005801 putative active site [active] 1235461005802 putative metal binding site [ion binding]; other site 1235461005803 malic enzyme; Reviewed; Region: PRK12862 1235461005804 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1235461005805 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1235461005806 putative NAD(P) binding site [chemical binding]; other site 1235461005807 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1235461005808 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1235461005809 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461005810 DNA binding residues [nucleotide binding] 1235461005811 dimerization interface [polypeptide binding]; other site 1235461005812 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 1235461005813 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 1235461005814 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1235461005815 putative FMN binding site [chemical binding]; other site 1235461005816 short chain dehydrogenase; Provisional; Region: PRK06198 1235461005817 classical (c) SDRs; Region: SDR_c; cd05233 1235461005818 NAD(P) binding site [chemical binding]; other site 1235461005819 active site 1235461005820 Protein involved in biosynthesis of mitomycin antibiotics/polyketide fumonisin [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5285 1235461005821 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461005822 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461005823 DNA binding site [nucleotide binding] 1235461005824 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1235461005825 putative ligand binding site [chemical binding]; other site 1235461005826 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1235461005827 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1235461005828 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1235461005829 NAD synthetase; Provisional; Region: PRK13981 1235461005830 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1235461005831 multimer interface [polypeptide binding]; other site 1235461005832 active site 1235461005833 catalytic triad [active] 1235461005834 protein interface 1 [polypeptide binding]; other site 1235461005835 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1235461005836 homodimer interface [polypeptide binding]; other site 1235461005837 NAD binding pocket [chemical binding]; other site 1235461005838 ATP binding pocket [chemical binding]; other site 1235461005839 Mg binding site [ion binding]; other site 1235461005840 active-site loop [active] 1235461005841 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1235461005842 Sulfatase; Region: Sulfatase; pfam00884 1235461005843 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1235461005844 TadE-like protein; Region: TadE; pfam07811 1235461005845 Predicted membrane protein [Function unknown]; Region: COG4655 1235461005846 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1235461005847 Predicted transcriptional regulator [Transcription]; Region: COG1959 1235461005848 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461005849 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1235461005850 glutathione-disulfide reductase, plant; Region: gluta_reduc_2; TIGR01424 1235461005851 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461005852 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1235461005853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 1235461005854 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1235461005855 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1235461005856 active site 1235461005857 dimer interface [polypeptide binding]; other site 1235461005858 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1235461005859 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461005860 motif II; other site 1235461005861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1235461005862 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461005863 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461005864 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1235461005865 Class II fumarases; Region: Fumarase_classII; cd01362 1235461005866 active site 1235461005867 tetramer interface [polypeptide binding]; other site 1235461005868 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1235461005869 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461005870 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461005871 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1235461005872 MarR family; Region: MarR_2; pfam12802 1235461005873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1235461005874 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1235461005875 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461005876 FeS/SAM binding site; other site 1235461005877 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1235461005878 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461005879 EamA-like transporter family; Region: EamA; pfam00892 1235461005880 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1235461005881 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1235461005882 GTP binding site; other site 1235461005883 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1235461005884 Walker A motif; other site 1235461005885 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1235461005886 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1235461005887 ligand binding site [chemical binding]; other site 1235461005888 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1235461005889 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461005890 substrate binding pocket [chemical binding]; other site 1235461005891 membrane-bound complex binding site; other site 1235461005892 hinge residues; other site 1235461005893 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461005894 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461005895 dimer interface [polypeptide binding]; other site 1235461005896 conserved gate region; other site 1235461005897 putative PBP binding loops; other site 1235461005898 ABC-ATPase subunit interface; other site 1235461005899 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461005900 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461005901 dimer interface [polypeptide binding]; other site 1235461005902 conserved gate region; other site 1235461005903 putative PBP binding loops; other site 1235461005904 ABC-ATPase subunit interface; other site 1235461005905 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 1235461005906 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1235461005907 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1235461005908 putative NAD(P) binding site [chemical binding]; other site 1235461005909 putative active site [active] 1235461005910 Predicted integral membrane protein [Function unknown]; Region: COG5530 1235461005911 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1235461005912 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1235461005913 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1235461005914 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1235461005915 NAD(P) binding pocket [chemical binding]; other site 1235461005916 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1235461005917 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1235461005918 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1235461005919 active site 1235461005920 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461005921 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461005922 putative DNA binding site [nucleotide binding]; other site 1235461005923 putative Zn2+ binding site [ion binding]; other site 1235461005924 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461005925 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1235461005926 putative uracil binding site [chemical binding]; other site 1235461005927 putative active site [active] 1235461005928 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1235461005929 Catalytic site; other site 1235461005930 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1235461005931 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461005932 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461005933 dimer interface [polypeptide binding]; other site 1235461005934 phosphorylation site [posttranslational modification] 1235461005935 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461005936 ATP binding site [chemical binding]; other site 1235461005937 Mg2+ binding site [ion binding]; other site 1235461005938 G-X-G motif; other site 1235461005939 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1235461005940 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1235461005941 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1235461005942 putative dimer interface [polypeptide binding]; other site 1235461005943 active site pocket [active] 1235461005944 putative cataytic base [active] 1235461005945 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1235461005946 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1235461005947 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1235461005948 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1235461005949 catalytic motif [active] 1235461005950 Catalytic residue [active] 1235461005951 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1235461005952 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1235461005953 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1235461005954 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1235461005955 Walker A/P-loop; other site 1235461005956 ATP binding site [chemical binding]; other site 1235461005957 Q-loop/lid; other site 1235461005958 ABC transporter signature motif; other site 1235461005959 Walker B; other site 1235461005960 D-loop; other site 1235461005961 H-loop/switch region; other site 1235461005962 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461005963 dimerization interface [polypeptide binding]; other site 1235461005964 putative DNA binding site [nucleotide binding]; other site 1235461005965 putative Zn2+ binding site [ion binding]; other site 1235461005966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 1235461005967 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1235461005968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1235461005969 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1235461005970 Cache domain; Region: Cache_2; pfam08269 1235461005971 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461005972 dimerization interface [polypeptide binding]; other site 1235461005973 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1235461005974 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1235461005975 dimer interface [polypeptide binding]; other site 1235461005976 putative CheW interface [polypeptide binding]; other site 1235461005977 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1235461005978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3169 1235461005979 excinuclease ABC subunit B; Provisional; Region: PRK05298 1235461005980 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461005981 ATP binding site [chemical binding]; other site 1235461005982 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461005983 nucleotide binding region [chemical binding]; other site 1235461005984 ATP-binding site [chemical binding]; other site 1235461005985 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1235461005986 UvrB/uvrC motif; Region: UVR; pfam02151 1235461005987 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1235461005988 HSP70 interaction site [polypeptide binding]; other site 1235461005989 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461005990 DNA-binding site [nucleotide binding]; DNA binding site 1235461005991 RNA-binding motif; other site 1235461005992 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1235461005993 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1235461005994 FMN binding site [chemical binding]; other site 1235461005995 active site 1235461005996 catalytic residues [active] 1235461005997 substrate binding site [chemical binding]; other site 1235461005998 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461005999 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1235461006000 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1235461006001 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1235461006002 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1235461006003 trimer interface [polypeptide binding]; other site 1235461006004 putative metal binding site [ion binding]; other site 1235461006005 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1235461006006 metal binding site 2 [ion binding]; metal-binding site 1235461006007 putative DNA binding helix; other site 1235461006008 metal binding site 1 [ion binding]; metal-binding site 1235461006009 dimer interface [polypeptide binding]; other site 1235461006010 structural Zn2+ binding site [ion binding]; other site 1235461006011 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1235461006012 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461006013 ABC-ATPase subunit interface; other site 1235461006014 dimer interface [polypeptide binding]; other site 1235461006015 putative PBP binding regions; other site 1235461006016 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1235461006017 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1235461006018 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1235461006019 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1235461006020 metal binding site [ion binding]; metal-binding site 1235461006021 Predicted integral membrane protein [Function unknown]; Region: COG5455 1235461006022 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1235461006023 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1235461006024 inhibitor binding site; inhibition site 1235461006025 active site 1235461006026 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1235461006027 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1235461006028 DctM-like transporters; Region: DctM; pfam06808 1235461006029 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1235461006030 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461006031 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461006032 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461006033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1235461006034 Integrase core domain; Region: rve; pfam00665 1235461006035 Integrase core domain; Region: rve_3; pfam13683 1235461006036 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1235461006037 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1235461006038 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461006039 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461006040 active site 1235461006041 catalytic tetrad [active] 1235461006042 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461006043 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461006044 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461006045 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1235461006046 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1235461006047 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1235461006048 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1235461006049 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461006050 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461006051 Walker A/P-loop; other site 1235461006052 ATP binding site [chemical binding]; other site 1235461006053 Q-loop/lid; other site 1235461006054 ABC transporter signature motif; other site 1235461006055 Walker B; other site 1235461006056 D-loop; other site 1235461006057 H-loop/switch region; other site 1235461006058 TOBE domain; Region: TOBE; pfam03459 1235461006059 TOBE domain; Region: TOBE_2; pfam08402 1235461006060 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461006061 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006062 dimer interface [polypeptide binding]; other site 1235461006063 conserved gate region; other site 1235461006064 putative PBP binding loops; other site 1235461006065 ABC-ATPase subunit interface; other site 1235461006066 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006067 dimer interface [polypeptide binding]; other site 1235461006068 conserved gate region; other site 1235461006069 putative PBP binding loops; other site 1235461006070 ABC-ATPase subunit interface; other site 1235461006071 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461006072 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461006073 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461006074 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461006075 DNA binding site [nucleotide binding] 1235461006076 domain linker motif; other site 1235461006077 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1235461006078 ligand binding site [chemical binding]; other site 1235461006079 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1235461006080 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1235461006081 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1235461006082 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1235461006083 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1235461006084 Helix-turn-helix domain; Region: HTH_18; pfam12833 1235461006085 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1235461006086 hydrophobic ligand binding site; other site 1235461006087 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461006088 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1235461006089 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1235461006090 putative acyl-acceptor binding pocket; other site 1235461006091 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461006092 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 1235461006093 putative NAD(P) binding site [chemical binding]; other site 1235461006094 structural Zn binding site [ion binding]; other site 1235461006095 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 1235461006096 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1235461006097 dimer interface [polypeptide binding]; other site 1235461006098 active site 1235461006099 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 1235461006100 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1235461006101 active site 1235461006102 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 1235461006103 active site 2 [active] 1235461006104 active site 1 [active] 1235461006105 acyl carrier protein; Provisional; Region: PRK06508 1235461006106 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1235461006107 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1235461006108 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461006109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461006110 homodimer interface [polypeptide binding]; other site 1235461006111 catalytic residue [active] 1235461006112 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1235461006113 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1235461006114 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1235461006115 active site 1235461006116 SAM binding site [chemical binding]; other site 1235461006117 homodimer interface [polypeptide binding]; other site 1235461006118 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1235461006119 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1235461006120 hypothetical protein; Provisional; Region: PRK10621 1235461006121 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1235461006122 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461006123 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461006124 Walker A/P-loop; other site 1235461006125 ATP binding site [chemical binding]; other site 1235461006126 Q-loop/lid; other site 1235461006127 ABC transporter signature motif; other site 1235461006128 Walker B; other site 1235461006129 D-loop; other site 1235461006130 H-loop/switch region; other site 1235461006131 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461006132 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461006133 Walker A/P-loop; other site 1235461006134 ATP binding site [chemical binding]; other site 1235461006135 Q-loop/lid; other site 1235461006136 ABC transporter signature motif; other site 1235461006137 Walker B; other site 1235461006138 D-loop; other site 1235461006139 H-loop/switch region; other site 1235461006140 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1235461006141 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1235461006142 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461006143 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1235461006144 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461006145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006146 dimer interface [polypeptide binding]; other site 1235461006147 conserved gate region; other site 1235461006148 putative PBP binding loops; other site 1235461006149 ABC-ATPase subunit interface; other site 1235461006150 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1235461006151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006152 dimer interface [polypeptide binding]; other site 1235461006153 conserved gate region; other site 1235461006154 putative PBP binding loops; other site 1235461006155 ABC-ATPase subunit interface; other site 1235461006156 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1235461006157 ANTAR domain; Region: ANTAR; pfam03861 1235461006158 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1235461006159 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 1235461006160 ligand binding site [chemical binding]; other site 1235461006161 regulator interaction site; other site 1235461006162 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1235461006163 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1235461006164 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1235461006165 homodimer interface [polypeptide binding]; other site 1235461006166 Walker A motif; other site 1235461006167 ATP binding site [chemical binding]; other site 1235461006168 hydroxycobalamin binding site [chemical binding]; other site 1235461006169 Walker B motif; other site 1235461006170 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1235461006171 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1235461006172 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1235461006173 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1235461006174 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1235461006175 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1235461006176 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1235461006177 homotrimer interface [polypeptide binding]; other site 1235461006178 Walker A motif; other site 1235461006179 GTP binding site [chemical binding]; other site 1235461006180 Walker B motif; other site 1235461006181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1235461006182 FecR protein; Region: FecR; pfam04773 1235461006183 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1235461006184 CHASE2 domain; Region: CHASE2; pfam05226 1235461006185 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461006186 cyclase homology domain; Region: CHD; cd07302 1235461006187 nucleotidyl binding site; other site 1235461006188 metal binding site [ion binding]; metal-binding site 1235461006189 dimer interface [polypeptide binding]; other site 1235461006190 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461006191 cobyric acid synthase; Provisional; Region: PRK00784 1235461006192 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1235461006193 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1235461006194 catalytic triad [active] 1235461006195 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1235461006196 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1235461006197 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1235461006198 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1235461006199 Walker A/P-loop; other site 1235461006200 ATP binding site [chemical binding]; other site 1235461006201 Q-loop/lid; other site 1235461006202 ABC transporter signature motif; other site 1235461006203 Walker B; other site 1235461006204 D-loop; other site 1235461006205 H-loop/switch region; other site 1235461006206 T4 gene Gp59 loader of gp41 DNA helicase C-term; Region: T4_Gp59_C; pfam08994 1235461006207 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1235461006208 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1235461006209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461006210 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461006211 dimerization interface [polypeptide binding]; other site 1235461006212 methionine synthase I; Validated; Region: PRK07534 1235461006213 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1235461006214 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1235461006215 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461006216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461006217 homodimer interface [polypeptide binding]; other site 1235461006218 catalytic residue [active] 1235461006219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1235461006220 YheO-like PAS domain; Region: PAS_6; pfam08348 1235461006221 HTH domain; Region: HTH_22; pfam13309 1235461006222 Predicted periplasmic protein [Function unknown]; Region: COG3698 1235461006223 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1235461006224 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 1235461006225 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 1235461006226 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1235461006227 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1235461006228 B12 binding site [chemical binding]; other site 1235461006229 cobalt ligand [ion binding]; other site 1235461006230 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 1235461006231 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1235461006232 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 1235461006233 putative active site [active] 1235461006234 putative cosubstrate binding site; other site 1235461006235 putative substrate binding site [chemical binding]; other site 1235461006236 catalytic site [active] 1235461006237 BA14K-like protein; Region: BA14K; pfam07886 1235461006238 Virulence factor; Region: Virulence_fact; pfam13769 1235461006239 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1235461006240 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1235461006241 FAD binding site [chemical binding]; other site 1235461006242 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1235461006243 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1235461006244 substrate binding pocket [chemical binding]; other site 1235461006245 dimer interface [polypeptide binding]; other site 1235461006246 inhibitor binding site; inhibition site 1235461006247 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1235461006248 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461006249 catalytic loop [active] 1235461006250 iron binding site [ion binding]; other site 1235461006251 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cd00227 1235461006252 AAA domain; Region: AAA_33; pfam13671 1235461006253 P-loop motif; other site 1235461006254 ATP binding site [chemical binding]; other site 1235461006255 Chloramphenicol (Cm) binding site [chemical binding]; other site 1235461006256 catalytic residue [active] 1235461006257 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 1235461006258 putative hydrophobic ligand binding site [chemical binding]; other site 1235461006259 CLM binding site; other site 1235461006260 L1 loop; other site 1235461006261 DNA binding site [nucleotide binding] 1235461006262 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461006263 dimerization interface [polypeptide binding]; other site 1235461006264 putative DNA binding site [nucleotide binding]; other site 1235461006265 putative Zn2+ binding site [ion binding]; other site 1235461006266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461006267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461006268 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461006269 dimerization interface [polypeptide binding]; other site 1235461006270 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461006271 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1235461006272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1235461006273 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1235461006274 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1235461006275 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1235461006276 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1235461006277 putative homodimer interface [polypeptide binding]; other site 1235461006278 putative homotetramer interface [polypeptide binding]; other site 1235461006279 putative metal binding site [ion binding]; other site 1235461006280 putative homodimer-homodimer interface [polypeptide binding]; other site 1235461006281 putative allosteric switch controlling residues; other site 1235461006282 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461006283 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1235461006284 conserved cys residue [active] 1235461006285 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461006286 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461006287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461006288 active site 1235461006289 phosphorylation site [posttranslational modification] 1235461006290 intermolecular recognition site; other site 1235461006291 dimerization interface [polypeptide binding]; other site 1235461006292 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461006293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461006294 active site 1235461006295 phosphorylation site [posttranslational modification] 1235461006296 intermolecular recognition site; other site 1235461006297 dimerization interface [polypeptide binding]; other site 1235461006298 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461006299 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461006300 cyclase homology domain; Region: CHD; cd07302 1235461006301 nucleotidyl binding site; other site 1235461006302 metal binding site [ion binding]; metal-binding site 1235461006303 dimer interface [polypeptide binding]; other site 1235461006304 RibD C-terminal domain; Region: RibD_C; cl17279 1235461006305 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1235461006306 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1235461006307 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1235461006308 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1235461006309 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461006310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1235461006311 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1235461006312 transmembrane helices; other site 1235461006313 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1235461006314 TrkA-C domain; Region: TrkA_C; pfam02080 1235461006315 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1235461006316 Protein of unknown function (DUF1515); Region: DUF1515; pfam07439 1235461006317 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1235461006318 catalytic residue [active] 1235461006319 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1235461006320 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1235461006321 active site 1235461006322 Terminase-like family; Region: Terminase_6; pfam03237 1235461006323 Bacteriophage terminase large (ATPase) subunit and inactivated derivatives [General function prediction only]; Region: COG5565 1235461006324 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461006325 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1235461006326 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1235461006327 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1235461006328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1235461006329 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461006330 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1235461006331 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461006332 DNA binding residues [nucleotide binding] 1235461006333 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1235461006334 FecR protein; Region: FecR; pfam04773 1235461006335 Secretin and TonB N terminus short domain; Region: STN; smart00965 1235461006336 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1235461006337 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1235461006338 N-terminal plug; other site 1235461006339 ligand-binding site [chemical binding]; other site 1235461006340 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1235461006341 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461006342 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1235461006343 Walker A/P-loop; other site 1235461006344 ATP binding site [chemical binding]; other site 1235461006345 Q-loop/lid; other site 1235461006346 ABC transporter signature motif; other site 1235461006347 Walker B; other site 1235461006348 D-loop; other site 1235461006349 H-loop/switch region; other site 1235461006350 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1235461006351 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461006352 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1235461006353 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 1235461006354 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1235461006355 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1235461006356 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1235461006357 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1235461006358 nudix motif; other site 1235461006359 putative catalytic site [active] 1235461006360 putative phosphate binding site [ion binding]; other site 1235461006361 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1235461006362 putative metal binding site [ion binding]; other site 1235461006363 TIGR02594 family protein; Region: TIGR02594 1235461006364 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1235461006365 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1235461006366 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1235461006367 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1235461006368 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1235461006369 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1235461006370 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461006371 cyclase homology domain; Region: CHD; cd07302 1235461006372 nucleotidyl binding site; other site 1235461006373 metal binding site [ion binding]; metal-binding site 1235461006374 dimer interface [polypeptide binding]; other site 1235461006375 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461006376 TPR repeat; Region: TPR_11; pfam13414 1235461006377 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461006378 binding surface 1235461006379 TPR motif; other site 1235461006380 cell division protein FtsZ; Provisional; Region: PRK13018 1235461006381 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1235461006382 nucleotide binding site [chemical binding]; other site 1235461006383 SulA interaction site; other site 1235461006384 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1235461006385 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461006386 active site 1235461006387 motif I; other site 1235461006388 motif II; other site 1235461006389 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1235461006390 AAA ATPase domain; Region: AAA_16; pfam13191 1235461006391 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461006392 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1235461006393 Walker A/P-loop; other site 1235461006394 ATP binding site [chemical binding]; other site 1235461006395 Q-loop/lid; other site 1235461006396 ABC transporter signature motif; other site 1235461006397 Walker B; other site 1235461006398 D-loop; other site 1235461006399 H-loop/switch region; other site 1235461006400 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1235461006401 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006402 dimer interface [polypeptide binding]; other site 1235461006403 conserved gate region; other site 1235461006404 putative PBP binding loops; other site 1235461006405 ABC-ATPase subunit interface; other site 1235461006406 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461006407 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461006408 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461006409 DNA-binding site [nucleotide binding]; DNA binding site 1235461006410 RNA-binding motif; other site 1235461006411 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1235461006412 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461006413 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1235461006414 C-terminal domain interface [polypeptide binding]; other site 1235461006415 GSH binding site (G-site) [chemical binding]; other site 1235461006416 dimer interface [polypeptide binding]; other site 1235461006417 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1235461006418 N-terminal domain interface [polypeptide binding]; other site 1235461006419 dimer interface [polypeptide binding]; other site 1235461006420 substrate binding pocket (H-site) [chemical binding]; other site 1235461006421 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461006422 active site 1235461006423 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461006424 catalytic tetrad [active] 1235461006425 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1235461006426 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461006427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461006428 homodimer interface [polypeptide binding]; other site 1235461006429 catalytic residue [active] 1235461006430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461006431 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461006432 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1235461006433 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1235461006434 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461006435 cyclase homology domain; Region: CHD; cd07302 1235461006436 nucleotidyl binding site; other site 1235461006437 metal binding site [ion binding]; metal-binding site 1235461006438 dimer interface [polypeptide binding]; other site 1235461006439 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1235461006440 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1235461006441 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1235461006442 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461006443 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461006444 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1235461006445 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461006446 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1235461006447 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1235461006448 Walker A/P-loop; other site 1235461006449 ATP binding site [chemical binding]; other site 1235461006450 Q-loop/lid; other site 1235461006451 ABC transporter signature motif; other site 1235461006452 Walker B; other site 1235461006453 D-loop; other site 1235461006454 H-loop/switch region; other site 1235461006455 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1235461006456 FtsX-like permease family; Region: FtsX; pfam02687 1235461006457 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1235461006458 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1235461006459 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1235461006460 Catalytic site; other site 1235461006461 Uncharacterized bacterial proteins with similarity to Aminoglycoside 3'-phosphotransferase (APH) and Choline kinase (ChoK) family members. The APH/ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases; Region: APH_ChoK_like_1; cd05155 1235461006462 Phosphotransferase enzyme family; Region: APH; pfam01636 1235461006463 putative active site [active] 1235461006464 putative substrate binding site [chemical binding]; other site 1235461006465 ATP binding site [chemical binding]; other site 1235461006466 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1235461006467 benzoate transport; Region: 2A0115; TIGR00895 1235461006468 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461006469 putative substrate translocation pore; other site 1235461006470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461006471 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1235461006472 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461006473 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1235461006474 putative active site [active] 1235461006475 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1235461006476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461006477 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461006478 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461006479 putative DNA binding site [nucleotide binding]; other site 1235461006480 putative Zn2+ binding site [ion binding]; other site 1235461006481 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461006482 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1235461006483 aspartate racemase; Region: asp_race; TIGR00035 1235461006484 Predicted transcriptional regulators [Transcription]; Region: COG1733 1235461006485 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1235461006486 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1235461006487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461006488 NAD(P) binding site [chemical binding]; other site 1235461006489 active site 1235461006490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 1235461006491 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1235461006492 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461006493 DNA-binding site [nucleotide binding]; DNA binding site 1235461006494 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461006495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461006496 homodimer interface [polypeptide binding]; other site 1235461006497 catalytic residue [active] 1235461006498 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1235461006499 active site 1235461006500 hydrophilic channel; other site 1235461006501 dimerization interface [polypeptide binding]; other site 1235461006502 catalytic residues [active] 1235461006503 active site lid [active] 1235461006504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 1235461006505 EF-hand domain pair; Region: EF_hand_5; pfam13499 1235461006506 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1235461006507 Ca2+ binding site [ion binding]; other site 1235461006508 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 1235461006509 Zn binding site [ion binding]; other site 1235461006510 Uncharacterized conserved protein [Function unknown]; Region: COG3482 1235461006511 YcaO-like family; Region: YcaO; pfam02624 1235461006512 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 1235461006513 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1235461006514 cyclase homology domain; Region: CHD; cd07302 1235461006515 nucleotidyl binding site; other site 1235461006516 metal binding site [ion binding]; metal-binding site 1235461006517 dimer interface [polypeptide binding]; other site 1235461006518 Predicted ATPase [General function prediction only]; Region: COG3899 1235461006519 AAA ATPase domain; Region: AAA_16; pfam13191 1235461006520 Predicted ATPase [General function prediction only]; Region: COG3903 1235461006521 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461006522 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461006523 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461006524 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 1235461006525 AAA domain; Region: AAA_30; pfam13604 1235461006526 Family description; Region: UvrD_C_2; pfam13538 1235461006527 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1235461006528 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1235461006529 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1235461006530 Predicted transcriptional regulator [Transcription]; Region: COG4190 1235461006531 Helix-turn-helix domain; Region: HTH_20; pfam12840 1235461006532 putative DNA binding site [nucleotide binding]; other site 1235461006533 putative Zn2+ binding site [ion binding]; other site 1235461006534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 1235461006535 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1235461006536 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1235461006537 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1235461006538 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461006539 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461006540 DNA binding residues [nucleotide binding] 1235461006541 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1235461006542 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 1235461006543 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 1235461006544 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 1235461006545 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 1235461006546 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 1235461006547 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461006548 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461006549 S-adenosylmethionine binding site [chemical binding]; other site 1235461006550 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461006551 DNA-binding site [nucleotide binding]; DNA binding site 1235461006552 RNA-binding motif; other site 1235461006553 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461006554 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461006555 active site 1235461006556 catalytic tetrad [active] 1235461006557 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1235461006558 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1235461006559 putative valine binding site [chemical binding]; other site 1235461006560 dimer interface [polypeptide binding]; other site 1235461006561 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1235461006562 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1235461006563 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1235461006564 PYR/PP interface [polypeptide binding]; other site 1235461006565 dimer interface [polypeptide binding]; other site 1235461006566 TPP binding site [chemical binding]; other site 1235461006567 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1235461006568 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1235461006569 TPP-binding site [chemical binding]; other site 1235461006570 dimer interface [polypeptide binding]; other site 1235461006571 HAS barrel domain; Region: HAS-barrel; pfam09378 1235461006572 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1235461006573 Domain of unknown function DUF87; Region: DUF87; pfam01935 1235461006574 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1235461006575 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1235461006576 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1235461006577 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1235461006578 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461006579 motif II; other site 1235461006580 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1235461006581 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1235461006582 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1235461006583 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1235461006584 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1235461006585 protein binding site [polypeptide binding]; other site 1235461006586 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1235461006587 protein binding site [polypeptide binding]; other site 1235461006588 Uncharacterized conserved protein [Function unknown]; Region: COG3603 1235461006589 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1235461006590 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1235461006591 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1235461006592 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1235461006593 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1235461006594 HflK protein; Region: hflK; TIGR01933 1235461006595 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1235461006596 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1235461006597 folate binding site [chemical binding]; other site 1235461006598 NADP+ binding site [chemical binding]; other site 1235461006599 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461006600 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1235461006601 putative C-terminal domain interface [polypeptide binding]; other site 1235461006602 putative GSH binding site (G-site) [chemical binding]; other site 1235461006603 putative dimer interface [polypeptide binding]; other site 1235461006604 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1235461006605 dimer interface [polypeptide binding]; other site 1235461006606 N-terminal domain interface [polypeptide binding]; other site 1235461006607 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461006608 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1235461006609 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1235461006610 dimerization interface [polypeptide binding]; other site 1235461006611 active site 1235461006612 Uncharacterized conserved protein [Function unknown]; Region: COG5502 1235461006613 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 1235461006614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1235461006615 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1235461006616 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1235461006617 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1235461006618 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1235461006619 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461006620 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 1235461006621 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1235461006622 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1235461006623 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461006624 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 1235461006625 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1235461006626 Protein export membrane protein; Region: SecD_SecF; cl14618 1235461006627 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461006628 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461006629 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461006630 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1235461006631 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1235461006632 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1235461006633 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1235461006634 Part of AAA domain; Region: AAA_19; pfam13245 1235461006635 Family description; Region: UvrD_C_2; pfam13538 1235461006636 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1235461006637 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461006638 Coenzyme A binding pocket [chemical binding]; other site 1235461006639 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 1235461006640 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461006641 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461006642 metal binding site [ion binding]; metal-binding site 1235461006643 active site 1235461006644 I-site; other site 1235461006645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1235461006646 CreA protein; Region: CreA; pfam05981 1235461006647 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cl00236 1235461006648 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1235461006649 putative CheA interaction surface; other site 1235461006650 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1235461006651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1235461006652 dimer interface [polypeptide binding]; other site 1235461006653 putative CheW interface [polypeptide binding]; other site 1235461006654 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1235461006655 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1235461006656 Cu(I) binding site [ion binding]; other site 1235461006657 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1235461006658 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461006659 S-adenosylmethionine binding site [chemical binding]; other site 1235461006660 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1235461006661 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1235461006662 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1235461006663 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1235461006664 active site 1235461006665 Nuclear pore component; Region: Nup88; pfam10168 1235461006666 Predicted membrane protein [Function unknown]; Region: COG4541 1235461006667 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1235461006668 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1235461006669 oligomerization interface [polypeptide binding]; other site 1235461006670 active site 1235461006671 metal binding site [ion binding]; metal-binding site 1235461006672 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1235461006673 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1235461006674 active site 1235461006675 ATP-binding site [chemical binding]; other site 1235461006676 pantoate-binding site; other site 1235461006677 HXXH motif; other site 1235461006678 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 1235461006679 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461006680 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461006681 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461006682 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461006683 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1235461006684 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1235461006685 nucleotide binding pocket [chemical binding]; other site 1235461006686 K-X-D-G motif; other site 1235461006687 catalytic site [active] 1235461006688 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1235461006689 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1235461006690 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1235461006691 Dimer interface [polypeptide binding]; other site 1235461006692 BRCT sequence motif; other site 1235461006693 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1235461006694 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1235461006695 Walker A/P-loop; other site 1235461006696 ATP binding site [chemical binding]; other site 1235461006697 Q-loop/lid; other site 1235461006698 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1235461006699 ABC transporter signature motif; other site 1235461006700 Walker B; other site 1235461006701 D-loop; other site 1235461006702 H-loop/switch region; other site 1235461006703 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1235461006704 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 1235461006705 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1235461006706 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 1235461006707 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1235461006708 nucleotide binding site [chemical binding]; other site 1235461006709 SulA interaction site; other site 1235461006710 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1235461006711 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1235461006712 Cell division protein FtsA; Region: FtsA; smart00842 1235461006713 Cell division protein FtsA; Region: FtsA; pfam14450 1235461006714 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1235461006715 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1235461006716 Cell division protein FtsQ; Region: FtsQ; pfam03799 1235461006717 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1235461006718 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1235461006719 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1235461006720 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1235461006721 amphipathic channel; other site 1235461006722 Asn-Pro-Ala signature motifs; other site 1235461006723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461006724 metabolite-proton symporter; Region: 2A0106; TIGR00883 1235461006725 putative substrate translocation pore; other site 1235461006726 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1235461006727 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1235461006728 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1235461006729 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1235461006730 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1235461006731 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1235461006732 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1235461006733 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1235461006734 homodimer interface [polypeptide binding]; other site 1235461006735 active site 1235461006736 cell division protein FtsW; Region: ftsW; TIGR02614 1235461006737 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1235461006738 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1235461006739 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1235461006740 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1235461006741 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1235461006742 Mg++ binding site [ion binding]; other site 1235461006743 putative catalytic motif [active] 1235461006744 putative substrate binding site [chemical binding]; other site 1235461006745 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1235461006746 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1235461006747 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1235461006748 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1235461006749 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1235461006750 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1235461006751 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1235461006752 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1235461006753 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1235461006754 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1235461006755 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1235461006756 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1235461006757 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1235461006758 MraW methylase family; Region: Methyltransf_5; cl17771 1235461006759 cell division protein MraZ; Reviewed; Region: PRK00326 1235461006760 MraZ protein; Region: MraZ; pfam02381 1235461006761 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461006762 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1235461006763 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461006764 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461006765 catalytic residue [active] 1235461006766 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1235461006767 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1235461006768 amidase catalytic site [active] 1235461006769 Zn binding residues [ion binding]; other site 1235461006770 substrate binding site [chemical binding]; other site 1235461006771 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461006772 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1235461006773 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1235461006774 putative metal binding site [ion binding]; other site 1235461006775 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1235461006776 HSP70 interaction site [polypeptide binding]; other site 1235461006777 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 1235461006778 6-phosphofructokinase [Carbohydrate transport and metabolism]; Region: PfkA; COG0205 1235461006779 active site 1235461006780 ADP/pyrophosphate binding site [chemical binding]; other site 1235461006781 allosteric effector site; other site 1235461006782 dimerization interface [polypeptide binding]; other site 1235461006783 fructose-1,6-bisphosphate binding site; other site 1235461006784 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461006785 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1235461006786 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461006787 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461006788 catalytic residue [active] 1235461006789 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1235461006790 Beta-lactamase; Region: Beta-lactamase; pfam00144 1235461006791 S-adenosylmethionine:diacylglycerol 3-amino-3-carboxypropyl transferase [Lipid metabolism]; Region: BtaA; COG5379 1235461006792 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461006793 S-adenosylmethionine binding site [chemical binding]; other site 1235461006794 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1235461006795 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 1235461006796 active site 1235461006797 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1235461006798 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1235461006799 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461006800 EamA-like transporter family; Region: EamA; cl17759 1235461006801 EamA-like transporter family; Region: EamA; pfam00892 1235461006802 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1235461006803 FAD binding site [chemical binding]; other site 1235461006804 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461006805 dimerization interface [polypeptide binding]; other site 1235461006806 putative DNA binding site [nucleotide binding]; other site 1235461006807 putative Zn2+ binding site [ion binding]; other site 1235461006808 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461006809 S-adenosylmethionine binding site [chemical binding]; other site 1235461006810 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1235461006811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461006812 Walker A/P-loop; other site 1235461006813 ATP binding site [chemical binding]; other site 1235461006814 Q-loop/lid; other site 1235461006815 ABC transporter signature motif; other site 1235461006816 Walker B; other site 1235461006817 D-loop; other site 1235461006818 H-loop/switch region; other site 1235461006819 ABC transporter; Region: ABC_tran_2; pfam12848 1235461006820 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461006821 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 1235461006822 B1 nucleotide binding pocket [chemical binding]; other site 1235461006823 B2 nucleotide binding pocket [chemical binding]; other site 1235461006824 CAS motifs; other site 1235461006825 active site 1235461006826 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1235461006827 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461006828 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461006829 EamA-like transporter family; Region: EamA; pfam00892 1235461006830 thiamine pyrophosphate protein; Validated; Region: PRK08199 1235461006831 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1235461006832 PYR/PP interface [polypeptide binding]; other site 1235461006833 dimer interface [polypeptide binding]; other site 1235461006834 TPP binding site [chemical binding]; other site 1235461006835 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1235461006836 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1235461006837 TPP-binding site [chemical binding]; other site 1235461006838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 1235461006839 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 1235461006840 active site 1235461006841 catalytic residues [active] 1235461006842 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461006843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461006844 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461006845 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461006846 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461006847 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1235461006848 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461006849 P-loop; other site 1235461006850 Magnesium ion binding site [ion binding]; other site 1235461006851 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1235461006852 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1235461006853 putative active site [active] 1235461006854 metal binding site [ion binding]; metal-binding site 1235461006855 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1235461006856 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 1235461006857 NAD(P) binding site [chemical binding]; other site 1235461006858 catalytic residues [active] 1235461006859 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1235461006860 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1235461006861 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 1235461006862 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1235461006863 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1235461006864 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461006865 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1235461006866 putative active site [active] 1235461006867 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461006868 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461006869 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461006870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006871 dimer interface [polypeptide binding]; other site 1235461006872 conserved gate region; other site 1235461006873 putative PBP binding loops; other site 1235461006874 ABC-ATPase subunit interface; other site 1235461006875 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461006876 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006877 dimer interface [polypeptide binding]; other site 1235461006878 conserved gate region; other site 1235461006879 putative PBP binding loops; other site 1235461006880 ABC-ATPase subunit interface; other site 1235461006881 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461006882 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461006883 Walker A/P-loop; other site 1235461006884 ATP binding site [chemical binding]; other site 1235461006885 Q-loop/lid; other site 1235461006886 ABC transporter signature motif; other site 1235461006887 Walker B; other site 1235461006888 D-loop; other site 1235461006889 H-loop/switch region; other site 1235461006890 TOBE domain; Region: TOBE_2; pfam08402 1235461006891 riboflavin synthase subunit beta; Provisional; Region: PRK12419 1235461006892 active site 1235461006893 homopentamer interface [polypeptide binding]; other site 1235461006894 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461006895 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461006896 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461006897 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1235461006898 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1235461006899 N-terminal plug; other site 1235461006900 ligand-binding site [chemical binding]; other site 1235461006901 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461006902 MULE transposase domain; Region: MULE; pfam10551 1235461006903 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1235461006904 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1235461006905 substrate binding site [chemical binding]; other site 1235461006906 dimer interface [polypeptide binding]; other site 1235461006907 triosephosphate isomerase; Provisional; Region: PRK14565 1235461006908 catalytic triad [active] 1235461006909 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1235461006910 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1235461006911 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1235461006912 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1235461006913 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 1235461006914 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1235461006915 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461006916 active site 1235461006917 motif I; other site 1235461006918 motif II; other site 1235461006919 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1235461006920 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1235461006921 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461006922 nucleotide binding site [chemical binding]; other site 1235461006923 Uncharacterized conserved protein [Function unknown]; Region: COG3347 1235461006924 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 1235461006925 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 1235461006926 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1235461006927 intersubunit interface [polypeptide binding]; other site 1235461006928 active site 1235461006929 Zn2+ binding site [ion binding]; other site 1235461006930 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1235461006931 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 1235461006932 putative ligand binding site [chemical binding]; other site 1235461006933 putative NAD binding site [chemical binding]; other site 1235461006934 catalytic site [active] 1235461006935 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1235461006936 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1235461006937 putative N- and C-terminal domain interface [polypeptide binding]; other site 1235461006938 putative active site [active] 1235461006939 MgATP binding site [chemical binding]; other site 1235461006940 catalytic site [active] 1235461006941 metal binding site [ion binding]; metal-binding site 1235461006942 putative xylulose binding site [chemical binding]; other site 1235461006943 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461006944 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1235461006945 Walker A/P-loop; other site 1235461006946 ATP binding site [chemical binding]; other site 1235461006947 Q-loop/lid; other site 1235461006948 ABC transporter signature motif; other site 1235461006949 Walker B; other site 1235461006950 D-loop; other site 1235461006951 H-loop/switch region; other site 1235461006952 TOBE domain; Region: TOBE_2; pfam08402 1235461006953 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461006954 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461006955 Walker A/P-loop; other site 1235461006956 ATP binding site [chemical binding]; other site 1235461006957 Q-loop/lid; other site 1235461006958 ABC transporter signature motif; other site 1235461006959 Walker B; other site 1235461006960 D-loop; other site 1235461006961 H-loop/switch region; other site 1235461006962 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461006963 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461006964 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1235461006965 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006966 dimer interface [polypeptide binding]; other site 1235461006967 conserved gate region; other site 1235461006968 putative PBP binding loops; other site 1235461006969 ABC-ATPase subunit interface; other site 1235461006970 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461006971 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461006972 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1235461006973 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1235461006974 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461006975 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461006976 DNA binding residues [nucleotide binding] 1235461006977 dimerization interface [polypeptide binding]; other site 1235461006978 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461006979 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1235461006980 Walker A/P-loop; other site 1235461006981 ATP binding site [chemical binding]; other site 1235461006982 Q-loop/lid; other site 1235461006983 ABC transporter signature motif; other site 1235461006984 Walker B; other site 1235461006985 D-loop; other site 1235461006986 H-loop/switch region; other site 1235461006987 TOBE domain; Region: TOBE_2; pfam08402 1235461006988 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461006989 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461006990 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461006991 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006992 putative PBP binding loops; other site 1235461006993 ABC-ATPase subunit interface; other site 1235461006994 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461006995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461006996 dimer interface [polypeptide binding]; other site 1235461006997 conserved gate region; other site 1235461006998 putative PBP binding loops; other site 1235461006999 ABC-ATPase subunit interface; other site 1235461007000 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461007001 classical (c) SDRs; Region: SDR_c; cd05233 1235461007002 NAD(P) binding site [chemical binding]; other site 1235461007003 active site 1235461007004 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461007005 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1235461007006 conserved cys residue [active] 1235461007007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461007008 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1235461007009 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 1235461007010 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1235461007011 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1235461007012 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1235461007013 active site 1235461007014 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1235461007015 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1235461007016 active site 1235461007017 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1235461007018 CoA binding domain; Region: CoA_binding_2; pfam13380 1235461007019 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1235461007020 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1235461007021 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 1235461007022 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461007023 substrate binding site [chemical binding]; other site 1235461007024 oxyanion hole (OAH) forming residues; other site 1235461007025 trimer interface [polypeptide binding]; other site 1235461007026 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461007027 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1235461007028 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461007029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007030 dimer interface [polypeptide binding]; other site 1235461007031 conserved gate region; other site 1235461007032 ABC-ATPase subunit interface; other site 1235461007033 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461007034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007035 dimer interface [polypeptide binding]; other site 1235461007036 conserved gate region; other site 1235461007037 ABC-ATPase subunit interface; other site 1235461007038 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461007039 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461007040 Walker A/P-loop; other site 1235461007041 ATP binding site [chemical binding]; other site 1235461007042 Q-loop/lid; other site 1235461007043 ABC transporter signature motif; other site 1235461007044 Walker B; other site 1235461007045 D-loop; other site 1235461007046 H-loop/switch region; other site 1235461007047 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461007048 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461007049 Walker A/P-loop; other site 1235461007050 ATP binding site [chemical binding]; other site 1235461007051 Q-loop/lid; other site 1235461007052 ABC transporter signature motif; other site 1235461007053 Walker B; other site 1235461007054 D-loop; other site 1235461007055 H-loop/switch region; other site 1235461007056 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461007057 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461007058 sequence-specific DNA binding site [nucleotide binding]; other site 1235461007059 salt bridge; other site 1235461007060 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461007061 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1235461007062 Predicted acyl esterases [General function prediction only]; Region: COG2936 1235461007063 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1235461007064 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1235461007065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1235461007066 ACT domain; Region: ACT_3; pfam10000 1235461007067 Family description; Region: ACT_7; pfam13840 1235461007068 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1235461007069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461007070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461007071 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 1235461007072 putative substrate binding pocket [chemical binding]; other site 1235461007073 dimerization interface [polypeptide binding]; other site 1235461007074 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461007075 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461007076 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461007077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461007078 Walker A/P-loop; other site 1235461007079 ATP binding site [chemical binding]; other site 1235461007080 Q-loop/lid; other site 1235461007081 ABC transporter signature motif; other site 1235461007082 Walker B; other site 1235461007083 D-loop; other site 1235461007084 H-loop/switch region; other site 1235461007085 TOBE domain; Region: TOBE_2; pfam08402 1235461007086 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007087 dimer interface [polypeptide binding]; other site 1235461007088 conserved gate region; other site 1235461007089 putative PBP binding loops; other site 1235461007090 ABC-ATPase subunit interface; other site 1235461007091 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461007092 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007093 dimer interface [polypeptide binding]; other site 1235461007094 conserved gate region; other site 1235461007095 putative PBP binding loops; other site 1235461007096 ABC-ATPase subunit interface; other site 1235461007097 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1235461007098 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1235461007099 tetrameric interface [polypeptide binding]; other site 1235461007100 NAD binding site [chemical binding]; other site 1235461007101 catalytic residues [active] 1235461007102 substrate binding site [chemical binding]; other site 1235461007103 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 1235461007104 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1235461007105 N-terminal plug; other site 1235461007106 ligand-binding site [chemical binding]; other site 1235461007107 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 1235461007108 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1235461007109 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1235461007110 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1235461007111 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 1235461007112 putative ligand binding residues [chemical binding]; other site 1235461007113 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 1235461007114 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461007115 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461007116 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1235461007117 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1235461007118 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461007119 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461007120 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461007121 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1235461007122 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461007123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461007124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461007125 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461007126 dimerization interface [polypeptide binding]; other site 1235461007127 Predicted membrane protein [Function unknown]; Region: COG4425 1235461007128 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 1235461007129 methionine gamma-lyase; Validated; Region: PRK07049 1235461007130 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1235461007131 homodimer interface [polypeptide binding]; other site 1235461007132 substrate-cofactor binding pocket; other site 1235461007133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461007134 catalytic residue [active] 1235461007135 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 1235461007136 dimer interface [polypeptide binding]; other site 1235461007137 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461007138 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461007139 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461007140 enoyl-CoA hydratase; Provisional; Region: PRK05980 1235461007141 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461007142 substrate binding site [chemical binding]; other site 1235461007143 oxyanion hole (OAH) forming residues; other site 1235461007144 trimer interface [polypeptide binding]; other site 1235461007145 Predicted integral membrane protein [Function unknown]; Region: COG5500 1235461007146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1235461007147 Putative glucoamylase; Region: Glycoamylase; pfam10091 1235461007148 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 1235461007149 Uncharacterized conserved protein [Function unknown]; Region: COG1944 1235461007150 YcaO-like family; Region: YcaO; pfam02624 1235461007151 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1235461007152 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461007153 TPR motif; other site 1235461007154 binding surface 1235461007155 Aminoglycoside N3'-acetyltransferase [Defense mechanisms]; Region: COG2746 1235461007156 Coenzyme A binding pocket [chemical binding]; other site 1235461007157 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1235461007158 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1235461007159 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1235461007160 active site 1235461007161 substrate binding site [chemical binding]; other site 1235461007162 FMN binding site [chemical binding]; other site 1235461007163 putative catalytic residues [active] 1235461007164 topology modulation protein; Reviewed; Region: PRK08118 1235461007165 AAA domain; Region: AAA_17; pfam13207 1235461007166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4424 1235461007167 replicative DNA helicase; Provisional; Region: PRK05973 1235461007168 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 1235461007169 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1235461007170 dimer interface [polypeptide binding]; other site 1235461007171 substrate binding site [chemical binding]; other site 1235461007172 metal binding site [ion binding]; metal-binding site 1235461007173 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1235461007174 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1235461007175 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1235461007176 Acid Phosphatase; Region: Acid_PPase; cl17256 1235461007177 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461007178 active site 1235461007179 DNA binding site [nucleotide binding] 1235461007180 Int/Topo IB signature motif; other site 1235461007181 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461007182 non-specific DNA binding site [nucleotide binding]; other site 1235461007183 salt bridge; other site 1235461007184 sequence-specific DNA binding site [nucleotide binding]; other site 1235461007185 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461007186 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1235461007187 Walker A motif; other site 1235461007188 ATP binding site [chemical binding]; other site 1235461007189 Walker B motif; other site 1235461007190 arginine finger; other site 1235461007191 Peptidase family M41; Region: Peptidase_M41; pfam01434 1235461007192 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461007193 non-specific DNA binding site [nucleotide binding]; other site 1235461007194 salt bridge; other site 1235461007195 sequence-specific DNA binding site [nucleotide binding]; other site 1235461007196 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461007197 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1235461007198 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461007199 putative active site [active] 1235461007200 putative NTP binding site [chemical binding]; other site 1235461007201 putative nucleic acid binding site [nucleotide binding]; other site 1235461007202 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461007203 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461007204 MULE transposase domain; Region: MULE; pfam10551 1235461007205 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461007206 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 1235461007207 substrate binding site [chemical binding]; other site 1235461007208 Family description; Region: VCBS; pfam13517 1235461007209 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 1235461007210 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1235461007211 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 1235461007212 putative active site [active] 1235461007213 putative NTP binding site [chemical binding]; other site 1235461007214 putative nucleic acid binding site [nucleotide binding]; other site 1235461007215 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461007216 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1235461007217 Domain of unknown function DUF87; Region: DUF87; pfam01935 1235461007218 AAA-like domain; Region: AAA_10; pfam12846 1235461007219 Zonular occludens toxin (Zot); Region: Zot; cl17485 1235461007220 SIR2-like domain; Region: SIR2_2; pfam13289 1235461007221 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1235461007222 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461007223 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1235461007224 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1235461007225 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1235461007226 active site 1235461007227 catalytic triad [active] 1235461007228 dimer interface [polypeptide binding]; other site 1235461007229 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1235461007230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461007231 ribbon-helix-helix domain containing protein; Region: PHA00617 1235461007232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461007233 Transposase; Region: HTH_Tnp_1; pfam01527 1235461007234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461007235 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461007236 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 1235461007237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461007238 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461007239 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461007240 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461007241 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1235461007242 Family description; Region: UvrD_C_2; pfam13538 1235461007243 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 1235461007244 Part of AAA domain; Region: AAA_19; pfam13245 1235461007245 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1235461007246 AAA domain; Region: AAA_12; pfam13087 1235461007247 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1235461007248 putative active site [active] 1235461007249 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 1235461007250 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 1235461007251 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1235461007252 AAA domain; Region: AAA_27; pfam13514 1235461007253 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1235461007254 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461007255 active site 1235461007256 metal binding site [ion binding]; metal-binding site 1235461007257 DNA binding site [nucleotide binding] 1235461007258 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 1235461007259 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1235461007260 active site 1235461007261 DNA binding site [nucleotide binding] 1235461007262 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 1235461007263 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1235461007264 DNA binding site [nucleotide binding] 1235461007265 Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]; Region: COG3285 1235461007266 nucleotide binding site [chemical binding]; other site 1235461007267 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1235461007268 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1235461007269 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1235461007270 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1235461007271 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1235461007272 Uncharacterized conserved protein [Function unknown]; Region: COG5507 1235461007273 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461007274 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461007275 catalytic residue [active] 1235461007276 Uncharacterized conserved protein [Function unknown]; Region: COG4274 1235461007277 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1235461007278 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1235461007279 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1235461007280 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1235461007281 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461007282 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1235461007283 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461007284 DNA binding residues [nucleotide binding] 1235461007285 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1235461007286 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1235461007287 NAD(P) binding site [chemical binding]; other site 1235461007288 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1235461007289 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1235461007290 substrate-cofactor binding pocket; other site 1235461007291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461007292 catalytic residue [active] 1235461007293 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1235461007294 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461007295 ATP binding site [chemical binding]; other site 1235461007296 putative Mg++ binding site [ion binding]; other site 1235461007297 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461007298 nucleotide binding region [chemical binding]; other site 1235461007299 ATP-binding site [chemical binding]; other site 1235461007300 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1235461007301 HRDC domain; Region: HRDC; pfam00570 1235461007302 DNA primase; Validated; Region: dnaG; PRK05667 1235461007303 CHC2 zinc finger; Region: zf-CHC2; cl17510 1235461007304 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1235461007305 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 1235461007306 active site 1235461007307 metal binding site [ion binding]; metal-binding site 1235461007308 interdomain interaction site; other site 1235461007309 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1235461007310 Uncharacterized conserved protein [Function unknown]; Region: COG1610 1235461007311 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1235461007312 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1235461007313 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1235461007314 catalytic site [active] 1235461007315 subunit interface [polypeptide binding]; other site 1235461007316 LysR family transcriptional regulator; Provisional; Region: PRK14997 1235461007317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461007318 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461007319 putative effector binding pocket; other site 1235461007320 dimerization interface [polypeptide binding]; other site 1235461007321 short chain dehydrogenase; Provisional; Region: PRK06500 1235461007322 classical (c) SDRs; Region: SDR_c; cd05233 1235461007323 NAD(P) binding site [chemical binding]; other site 1235461007324 active site 1235461007325 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1235461007326 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1235461007327 aspartate aminotransferase; Provisional; Region: PRK05764 1235461007328 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461007329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461007330 homodimer interface [polypeptide binding]; other site 1235461007331 catalytic residue [active] 1235461007332 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 1235461007333 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1235461007334 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1235461007335 EamA-like transporter family; Region: EamA; pfam00892 1235461007336 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461007337 DNA-binding site [nucleotide binding]; DNA binding site 1235461007338 RNA-binding motif; other site 1235461007339 BA14K-like protein; Region: BA14K; pfam07886 1235461007340 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1235461007341 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1235461007342 Bacterial SH3 domain; Region: SH3_3; pfam08239 1235461007343 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1235461007344 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461007345 MarR family; Region: MarR_2; pfam12802 1235461007346 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461007347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461007348 active site 1235461007349 phosphorylation site [posttranslational modification] 1235461007350 intermolecular recognition site; other site 1235461007351 dimerization interface [polypeptide binding]; other site 1235461007352 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461007353 DNA binding site [nucleotide binding] 1235461007354 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461007355 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1235461007356 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1235461007357 dimer interface [polypeptide binding]; other site 1235461007358 phosphorylation site [posttranslational modification] 1235461007359 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461007360 ATP binding site [chemical binding]; other site 1235461007361 Mg2+ binding site [ion binding]; other site 1235461007362 G-X-G motif; other site 1235461007363 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1235461007364 dimer interface [polypeptide binding]; other site 1235461007365 putative tRNA-binding site [nucleotide binding]; other site 1235461007366 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1235461007367 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1235461007368 Uncharacterized conserved protein [Function unknown]; Region: COG5465 1235461007369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1235461007370 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1235461007371 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1235461007372 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1235461007373 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1235461007374 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1235461007375 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1235461007376 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1235461007377 active site 1235461007378 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1235461007379 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1235461007380 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1235461007381 active site 1235461007382 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1235461007383 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1235461007384 tetramer interface [polypeptide binding]; other site 1235461007385 active site 1235461007386 Mg2+/Mn2+ binding site [ion binding]; other site 1235461007387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 1235461007388 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1235461007389 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461007390 NAD(P) binding site [chemical binding]; other site 1235461007391 catalytic residues [active] 1235461007392 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1235461007393 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1235461007394 Benzoate membrane transport protein; Region: BenE; pfam03594 1235461007395 benzoate transporter; Region: benE; TIGR00843 1235461007396 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1235461007397 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1235461007398 5S rRNA interface [nucleotide binding]; other site 1235461007399 CTC domain interface [polypeptide binding]; other site 1235461007400 L16 interface [polypeptide binding]; other site 1235461007401 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 1235461007402 putative active site [active] 1235461007403 catalytic residue [active] 1235461007404 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 1235461007405 GTP-binding protein YchF; Reviewed; Region: PRK09601 1235461007406 YchF GTPase; Region: YchF; cd01900 1235461007407 G1 box; other site 1235461007408 GTP/Mg2+ binding site [chemical binding]; other site 1235461007409 Switch I region; other site 1235461007410 G2 box; other site 1235461007411 Switch II region; other site 1235461007412 G3 box; other site 1235461007413 G4 box; other site 1235461007414 G5 box; other site 1235461007415 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1235461007416 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1235461007417 putative active site [active] 1235461007418 putative catalytic site [active] 1235461007419 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1235461007420 putative active site [active] 1235461007421 putative catalytic site [active] 1235461007422 Domain of unknown function (DUF1873); Region: DUF1873; pfam08969 1235461007423 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1235461007424 active site 1235461007425 Predicted small metal-binding protein [Function unknown]; Region: COG5466 1235461007426 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1235461007427 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1235461007428 active site 1235461007429 NTP binding site [chemical binding]; other site 1235461007430 metal binding triad [ion binding]; metal-binding site 1235461007431 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1235461007432 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1235461007433 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1235461007434 putative active site [active] 1235461007435 putative CoA binding site [chemical binding]; other site 1235461007436 nudix motif; other site 1235461007437 metal binding site [ion binding]; metal-binding site 1235461007438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1235461007439 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1235461007440 MoxR-like ATPases [General function prediction only]; Region: COG0714 1235461007441 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461007442 Walker A motif; other site 1235461007443 ATP binding site [chemical binding]; other site 1235461007444 Walker B motif; other site 1235461007445 arginine finger; other site 1235461007446 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1235461007447 Protein of unknown function DUF58; Region: DUF58; pfam01882 1235461007448 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 1235461007449 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1235461007450 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1235461007451 CARDB; Region: CARDB; pfam07705 1235461007452 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1235461007453 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1235461007454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461007455 Coenzyme A binding pocket [chemical binding]; other site 1235461007456 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1235461007457 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1235461007458 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1235461007459 putative dimer interface [polypeptide binding]; other site 1235461007460 N-terminal domain interface [polypeptide binding]; other site 1235461007461 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461007462 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1235461007463 FIC domain binding interface [polypeptide binding]; other site 1235461007464 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1235461007465 Fic/DOC family; Region: Fic; cl00960 1235461007466 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 1235461007467 nudix motif; other site 1235461007468 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461007469 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 1235461007470 putative active site [active] 1235461007471 putative metal binding site [ion binding]; other site 1235461007472 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1235461007473 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1235461007474 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461007475 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461007476 DNA binding residues [nucleotide binding] 1235461007477 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1235461007478 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1235461007479 putative active site [active] 1235461007480 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 1235461007481 2-isopropylmalate synthase; Validated; Region: PRK03739 1235461007482 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1235461007483 active site 1235461007484 catalytic residues [active] 1235461007485 metal binding site [ion binding]; metal-binding site 1235461007486 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1235461007487 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1235461007488 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1235461007489 oligomer interface [polypeptide binding]; other site 1235461007490 active site residues [active] 1235461007491 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1235461007492 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1235461007493 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1235461007494 Cation efflux family; Region: Cation_efflux; cl00316 1235461007495 anthranilate synthase; Provisional; Region: PRK13566 1235461007496 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1235461007497 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1235461007498 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1235461007499 glutamine binding [chemical binding]; other site 1235461007500 catalytic triad [active] 1235461007501 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1235461007502 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1235461007503 N-terminal plug; other site 1235461007504 ligand-binding site [chemical binding]; other site 1235461007505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1235461007506 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1235461007507 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1235461007508 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1235461007509 Potassium binding sites [ion binding]; other site 1235461007510 Cesium cation binding sites [ion binding]; other site 1235461007511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 1235461007512 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1235461007513 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1235461007514 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461007515 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1235461007516 putative active site [active] 1235461007517 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1235461007518 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1235461007519 thymidine kinase; Provisional; Region: PRK04296 1235461007520 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1235461007521 ATP binding site [chemical binding]; other site 1235461007522 Walker A motif; other site 1235461007523 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1235461007524 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1235461007525 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007526 dimer interface [polypeptide binding]; other site 1235461007527 conserved gate region; other site 1235461007528 putative PBP binding loops; other site 1235461007529 ABC-ATPase subunit interface; other site 1235461007530 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1235461007531 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461007532 Walker A/P-loop; other site 1235461007533 ATP binding site [chemical binding]; other site 1235461007534 Q-loop/lid; other site 1235461007535 ABC transporter signature motif; other site 1235461007536 Walker B; other site 1235461007537 D-loop; other site 1235461007538 H-loop/switch region; other site 1235461007539 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1235461007540 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1235461007541 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1235461007542 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1235461007543 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461007544 dimerization interface [polypeptide binding]; other site 1235461007545 putative DNA binding site [nucleotide binding]; other site 1235461007546 putative Zn2+ binding site [ion binding]; other site 1235461007547 AAA domain; Region: AAA_33; pfam13671 1235461007548 AAA domain; Region: AAA_17; pfam13207 1235461007549 omega amino acid--pyruvate transaminase; Provisional; Region: PRK13360 1235461007550 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461007551 inhibitor-cofactor binding pocket; inhibition site 1235461007552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461007553 catalytic residue [active] 1235461007554 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1235461007555 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461007556 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1235461007557 active site 1235461007558 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1235461007559 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 1235461007560 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1235461007561 active site 1235461007562 catalytic site [active] 1235461007563 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461007564 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1235461007565 substrate binding site [chemical binding]; other site 1235461007566 ATP binding site [chemical binding]; other site 1235461007567 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1235461007568 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461007569 Walker A/P-loop; other site 1235461007570 ATP binding site [chemical binding]; other site 1235461007571 Q-loop/lid; other site 1235461007572 ABC transporter signature motif; other site 1235461007573 Walker B; other site 1235461007574 D-loop; other site 1235461007575 H-loop/switch region; other site 1235461007576 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1235461007577 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461007578 Walker A/P-loop; other site 1235461007579 ATP binding site [chemical binding]; other site 1235461007580 Q-loop/lid; other site 1235461007581 ABC transporter signature motif; other site 1235461007582 Walker B; other site 1235461007583 D-loop; other site 1235461007584 H-loop/switch region; other site 1235461007585 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461007586 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461007587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007588 ABC-ATPase subunit interface; other site 1235461007589 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461007590 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007591 dimer interface [polypeptide binding]; other site 1235461007592 conserved gate region; other site 1235461007593 putative PBP binding loops; other site 1235461007594 ABC-ATPase subunit interface; other site 1235461007595 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461007596 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 1235461007597 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1235461007598 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1235461007599 active site 1235461007600 dimer interface [polypeptide binding]; other site 1235461007601 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1235461007602 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461007603 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461007604 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1235461007605 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1235461007606 oligomeric interface; other site 1235461007607 putative active site [active] 1235461007608 homodimer interface [polypeptide binding]; other site 1235461007609 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1235461007610 apolar tunnel; other site 1235461007611 heme binding site [chemical binding]; other site 1235461007612 dimerization interface [polypeptide binding]; other site 1235461007613 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1235461007614 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1235461007615 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1235461007616 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 1235461007617 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1235461007618 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1235461007619 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1235461007620 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1235461007621 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1235461007622 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1235461007623 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1235461007624 putative hemin binding site; other site 1235461007625 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1235461007626 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461007627 ABC-ATPase subunit interface; other site 1235461007628 dimer interface [polypeptide binding]; other site 1235461007629 putative PBP binding regions; other site 1235461007630 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1235461007631 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1235461007632 Walker A/P-loop; other site 1235461007633 ATP binding site [chemical binding]; other site 1235461007634 Q-loop/lid; other site 1235461007635 ABC transporter signature motif; other site 1235461007636 Walker B; other site 1235461007637 D-loop; other site 1235461007638 H-loop/switch region; other site 1235461007639 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1235461007640 GAF domain; Region: GAF; pfam01590 1235461007641 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461007642 PAS fold; Region: PAS_3; pfam08447 1235461007643 putative active site [active] 1235461007644 heme pocket [chemical binding]; other site 1235461007645 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1235461007646 HWE histidine kinase; Region: HWE_HK; pfam07536 1235461007647 RNA polymerase sigma factor; Provisional; Region: PRK12516 1235461007648 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461007649 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461007650 DNA binding residues [nucleotide binding] 1235461007651 two-component response regulator; Provisional; Region: PRK09191 1235461007652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461007653 active site 1235461007654 phosphorylation site [posttranslational modification] 1235461007655 intermolecular recognition site; other site 1235461007656 dimerization interface [polypeptide binding]; other site 1235461007657 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1235461007658 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1235461007659 N- and C-terminal domain interface [polypeptide binding]; other site 1235461007660 active site 1235461007661 MgATP binding site [chemical binding]; other site 1235461007662 catalytic site [active] 1235461007663 metal binding site [ion binding]; metal-binding site 1235461007664 carbohydrate binding site [chemical binding]; other site 1235461007665 putative homodimer interface [polypeptide binding]; other site 1235461007666 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1235461007667 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461007668 motif II; other site 1235461007669 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1235461007670 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1235461007671 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1235461007672 sorbitol dehydrogenase; Provisional; Region: PRK07067 1235461007673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461007674 NAD(P) binding site [chemical binding]; other site 1235461007675 active site 1235461007676 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461007677 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461007678 Walker A/P-loop; other site 1235461007679 ATP binding site [chemical binding]; other site 1235461007680 Q-loop/lid; other site 1235461007681 ABC transporter signature motif; other site 1235461007682 Walker B; other site 1235461007683 D-loop; other site 1235461007684 H-loop/switch region; other site 1235461007685 TOBE domain; Region: TOBE_2; pfam08402 1235461007686 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461007687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007688 dimer interface [polypeptide binding]; other site 1235461007689 conserved gate region; other site 1235461007690 putative PBP binding loops; other site 1235461007691 ABC-ATPase subunit interface; other site 1235461007692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007693 dimer interface [polypeptide binding]; other site 1235461007694 conserved gate region; other site 1235461007695 putative PBP binding loops; other site 1235461007696 ABC-ATPase subunit interface; other site 1235461007697 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461007698 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461007699 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1235461007700 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1235461007701 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1235461007702 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1235461007703 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1235461007704 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1235461007705 homodimer interface [polypeptide binding]; other site 1235461007706 active site 1235461007707 FMN binding site [chemical binding]; other site 1235461007708 substrate binding site [chemical binding]; other site 1235461007709 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1235461007710 4Fe-4S binding domain; Region: Fer4; pfam00037 1235461007711 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1235461007712 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461007713 putative NAD(P) binding site [chemical binding]; other site 1235461007714 LysR family transcriptional regulator; Provisional; Region: PRK14997 1235461007715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461007716 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1235461007717 putative effector binding pocket; other site 1235461007718 putative dimerization interface [polypeptide binding]; other site 1235461007719 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1235461007720 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461007721 catalytic loop [active] 1235461007722 iron binding site [ion binding]; other site 1235461007723 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461007724 cyclase homology domain; Region: CHD; cd07302 1235461007725 nucleotidyl binding site; other site 1235461007726 metal binding site [ion binding]; metal-binding site 1235461007727 dimer interface [polypeptide binding]; other site 1235461007728 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1235461007729 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461007730 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1235461007731 allantoate amidohydrolase; Reviewed; Region: PRK12893 1235461007732 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1235461007733 active site 1235461007734 metal binding site [ion binding]; metal-binding site 1235461007735 dimer interface [polypeptide binding]; other site 1235461007736 phenylhydantoinase; Validated; Region: PRK08323 1235461007737 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1235461007738 tetramer interface [polypeptide binding]; other site 1235461007739 active site 1235461007740 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: COG4101 1235461007741 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1235461007742 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1235461007743 Walker A/P-loop; other site 1235461007744 ATP binding site [chemical binding]; other site 1235461007745 Q-loop/lid; other site 1235461007746 ABC transporter signature motif; other site 1235461007747 Walker B; other site 1235461007748 D-loop; other site 1235461007749 H-loop/switch region; other site 1235461007750 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1235461007751 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461007752 Coenzyme A binding pocket [chemical binding]; other site 1235461007753 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1235461007754 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007755 dimer interface [polypeptide binding]; other site 1235461007756 conserved gate region; other site 1235461007757 putative PBP binding loops; other site 1235461007758 ABC-ATPase subunit interface; other site 1235461007759 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1235461007760 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007761 dimer interface [polypeptide binding]; other site 1235461007762 conserved gate region; other site 1235461007763 putative PBP binding loops; other site 1235461007764 ABC-ATPase subunit interface; other site 1235461007765 NMT1/THI5 like; Region: NMT1; pfam09084 1235461007766 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461007767 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461007768 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461007769 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1235461007770 Protein export membrane protein; Region: SecD_SecF; cl14618 1235461007771 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1235461007772 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1235461007773 UreF; Region: UreF; pfam01730 1235461007774 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 1235461007775 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1235461007776 dimer interface [polypeptide binding]; other site 1235461007777 catalytic residues [active] 1235461007778 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1235461007779 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1235461007780 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1235461007781 catalytic triad [active] 1235461007782 dimer interface [polypeptide binding]; other site 1235461007783 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1235461007784 Predicted transcriptional regulator [Transcription]; Region: COG2944 1235461007785 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1235461007786 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1235461007787 subunit interactions [polypeptide binding]; other site 1235461007788 active site 1235461007789 flap region; other site 1235461007790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1235461007791 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1235461007792 alpha-beta subunit interface [polypeptide binding]; other site 1235461007793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1235461007794 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1235461007795 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1235461007796 alpha-gamma subunit interface [polypeptide binding]; other site 1235461007797 beta-gamma subunit interface [polypeptide binding]; other site 1235461007798 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1235461007799 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1235461007800 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1235461007801 dimerization interface [polypeptide binding]; other site 1235461007802 ligand binding site [chemical binding]; other site 1235461007803 NADP binding site [chemical binding]; other site 1235461007804 catalytic site [active] 1235461007805 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461007806 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461007807 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1235461007808 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461007809 MarR family; Region: MarR; pfam01047 1235461007810 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1235461007811 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1235461007812 dimerization interface [polypeptide binding]; other site 1235461007813 ligand binding site [chemical binding]; other site 1235461007814 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1235461007815 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1235461007816 Walker A/P-loop; other site 1235461007817 ATP binding site [chemical binding]; other site 1235461007818 Q-loop/lid; other site 1235461007819 ABC transporter signature motif; other site 1235461007820 Walker B; other site 1235461007821 D-loop; other site 1235461007822 H-loop/switch region; other site 1235461007823 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461007824 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1235461007825 Walker A/P-loop; other site 1235461007826 ATP binding site [chemical binding]; other site 1235461007827 Q-loop/lid; other site 1235461007828 ABC transporter signature motif; other site 1235461007829 Walker B; other site 1235461007830 D-loop; other site 1235461007831 H-loop/switch region; other site 1235461007832 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1235461007833 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1235461007834 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1235461007835 TM-ABC transporter signature motif; other site 1235461007836 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461007837 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1235461007838 TM-ABC transporter signature motif; other site 1235461007839 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1235461007840 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461007841 active site 1235461007842 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461007843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1235461007844 active site 1235461007845 phosphorylation site [posttranslational modification] 1235461007846 intermolecular recognition site; other site 1235461007847 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461007848 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461007849 ligand binding site [chemical binding]; other site 1235461007850 flexible hinge region; other site 1235461007851 putative switch regulator; other site 1235461007852 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1235461007853 non-specific DNA interactions [nucleotide binding]; other site 1235461007854 DNA binding site [nucleotide binding] 1235461007855 sequence specific DNA binding site [nucleotide binding]; other site 1235461007856 putative cAMP binding site [chemical binding]; other site 1235461007857 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1235461007858 classical (c) SDRs; Region: SDR_c; cd05233 1235461007859 NAD(P) binding site [chemical binding]; other site 1235461007860 active site 1235461007861 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1235461007862 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461007863 Zn binding site [ion binding]; other site 1235461007864 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1235461007865 Zn binding site [ion binding]; other site 1235461007866 Predicted esterase [General function prediction only]; Region: COG0400 1235461007867 putative hydrolase; Provisional; Region: PRK11460 1235461007868 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461007869 Predicted flavoprotein [General function prediction only]; Region: COG0431 1235461007870 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1235461007871 Zn binding site [ion binding]; other site 1235461007872 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1235461007873 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461007874 Zn binding site [ion binding]; other site 1235461007875 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1235461007876 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1235461007877 putative active site [active] 1235461007878 catalytic triad [active] 1235461007879 putative dimer interface [polypeptide binding]; other site 1235461007880 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461007881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007882 dimer interface [polypeptide binding]; other site 1235461007883 conserved gate region; other site 1235461007884 putative PBP binding loops; other site 1235461007885 ABC-ATPase subunit interface; other site 1235461007886 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007887 putative PBP binding loops; other site 1235461007888 ABC-ATPase subunit interface; other site 1235461007889 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461007890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461007891 Walker A/P-loop; other site 1235461007892 ATP binding site [chemical binding]; other site 1235461007893 Q-loop/lid; other site 1235461007894 ABC transporter signature motif; other site 1235461007895 Walker B; other site 1235461007896 D-loop; other site 1235461007897 H-loop/switch region; other site 1235461007898 TOBE domain; Region: TOBE_2; pfam08402 1235461007899 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461007900 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461007901 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1235461007902 agmatinase; Region: agmatinase; TIGR01230 1235461007903 oligomer interface [polypeptide binding]; other site 1235461007904 putative active site [active] 1235461007905 Mn binding site [ion binding]; other site 1235461007906 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461007907 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461007908 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1235461007909 dimerization interface [polypeptide binding]; other site 1235461007910 substrate binding pocket [chemical binding]; other site 1235461007911 hypothetical protein; Provisional; Region: PRK07550 1235461007912 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461007913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461007914 homodimer interface [polypeptide binding]; other site 1235461007915 catalytic residue [active] 1235461007916 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1235461007917 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461007918 NAD binding site [chemical binding]; other site 1235461007919 catalytic residues [active] 1235461007920 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461007921 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461007922 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1235461007923 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1235461007924 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461007925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461007926 DNA-binding site [nucleotide binding]; DNA binding site 1235461007927 FCD domain; Region: FCD; pfam07729 1235461007928 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461007929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461007930 DNA-binding site [nucleotide binding]; DNA binding site 1235461007931 FCD domain; Region: FCD; pfam07729 1235461007932 hypothetical protein; Provisional; Region: PRK05968 1235461007933 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1235461007934 homodimer interface [polypeptide binding]; other site 1235461007935 substrate-cofactor binding pocket; other site 1235461007936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461007937 catalytic residue [active] 1235461007938 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461007939 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461007940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007941 dimer interface [polypeptide binding]; other site 1235461007942 conserved gate region; other site 1235461007943 putative PBP binding loops; other site 1235461007944 ABC-ATPase subunit interface; other site 1235461007945 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461007946 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461007947 dimer interface [polypeptide binding]; other site 1235461007948 conserved gate region; other site 1235461007949 putative PBP binding loops; other site 1235461007950 ABC-ATPase subunit interface; other site 1235461007951 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461007952 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461007953 Walker A/P-loop; other site 1235461007954 ATP binding site [chemical binding]; other site 1235461007955 Q-loop/lid; other site 1235461007956 ABC transporter signature motif; other site 1235461007957 Walker B; other site 1235461007958 D-loop; other site 1235461007959 H-loop/switch region; other site 1235461007960 TOBE domain; Region: TOBE_2; pfam08402 1235461007961 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1235461007962 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1235461007963 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1235461007964 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1235461007965 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1235461007966 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 1235461007967 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 1235461007968 Subunit I/III interface [polypeptide binding]; other site 1235461007969 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 1235461007970 Subunit I/III interface [polypeptide binding]; other site 1235461007971 Predicted small integral membrane protein [Function unknown]; Region: COG5605 1235461007972 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461007973 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461007974 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1235461007975 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461007976 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1235461007977 active site 1235461007978 metal binding site [ion binding]; metal-binding site 1235461007979 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461007980 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1235461007981 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461007982 short chain dehydrogenase; Provisional; Region: PRK07060 1235461007983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461007984 NAD(P) binding site [chemical binding]; other site 1235461007985 active site 1235461007986 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461007987 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 1235461007988 inhibitor binding site; inhibition site 1235461007989 catalytic Zn binding site [ion binding]; other site 1235461007990 structural Zn binding site [ion binding]; other site 1235461007991 NADP binding site [chemical binding]; other site 1235461007992 tetramer interface [polypeptide binding]; other site 1235461007993 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1235461007994 [2Fe-2S] cluster binding site [ion binding]; other site 1235461007995 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1235461007996 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461007997 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1235461007998 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1235461007999 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461008000 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461008001 TM-ABC transporter signature motif; other site 1235461008002 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461008003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461008004 Walker A/P-loop; other site 1235461008005 ATP binding site [chemical binding]; other site 1235461008006 Q-loop/lid; other site 1235461008007 ABC transporter signature motif; other site 1235461008008 Walker B; other site 1235461008009 D-loop; other site 1235461008010 H-loop/switch region; other site 1235461008011 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1235461008012 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461008013 putative ligand binding site [chemical binding]; other site 1235461008014 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461008015 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461008016 DNA binding site [nucleotide binding] 1235461008017 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1235461008018 putative ligand binding site [chemical binding]; other site 1235461008019 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1235461008020 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1235461008021 putative metal binding site [ion binding]; other site 1235461008022 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461008023 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 1235461008024 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1235461008025 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1235461008026 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461008027 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461008028 Walker A/P-loop; other site 1235461008029 ATP binding site [chemical binding]; other site 1235461008030 Q-loop/lid; other site 1235461008031 ABC transporter signature motif; other site 1235461008032 Walker B; other site 1235461008033 D-loop; other site 1235461008034 H-loop/switch region; other site 1235461008035 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461008036 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461008037 Walker A/P-loop; other site 1235461008038 ATP binding site [chemical binding]; other site 1235461008039 Q-loop/lid; other site 1235461008040 ABC transporter signature motif; other site 1235461008041 Walker B; other site 1235461008042 D-loop; other site 1235461008043 H-loop/switch region; other site 1235461008044 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461008045 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1235461008046 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461008047 dimer interface [polypeptide binding]; other site 1235461008048 conserved gate region; other site 1235461008049 putative PBP binding loops; other site 1235461008050 ABC-ATPase subunit interface; other site 1235461008051 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461008052 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461008053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461008054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461008055 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1235461008056 putative dimerization interface [polypeptide binding]; other site 1235461008057 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461008058 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461008059 TM-ABC transporter signature motif; other site 1235461008060 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461008061 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461008062 Walker A/P-loop; other site 1235461008063 ATP binding site [chemical binding]; other site 1235461008064 Q-loop/lid; other site 1235461008065 ABC transporter signature motif; other site 1235461008066 Walker B; other site 1235461008067 D-loop; other site 1235461008068 H-loop/switch region; other site 1235461008069 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461008070 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461008071 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1235461008072 ligand binding site [chemical binding]; other site 1235461008073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461008074 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461008075 NAD(P) binding site [chemical binding]; other site 1235461008076 active site 1235461008077 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1235461008078 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461008079 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461008080 DNA-binding site [nucleotide binding]; DNA binding site 1235461008081 FCD domain; Region: FCD; pfam07729 1235461008082 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461008083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461008084 NAD(P) binding site [chemical binding]; other site 1235461008085 active site 1235461008086 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1235461008087 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1235461008088 dimer interface [polypeptide binding]; other site 1235461008089 active site 1235461008090 metal binding site [ion binding]; metal-binding site 1235461008091 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1235461008092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461008093 NAD(P) binding site [chemical binding]; other site 1235461008094 active site 1235461008095 short chain dehydrogenase; Provisional; Region: PRK06841 1235461008096 classical (c) SDRs; Region: SDR_c; cd05233 1235461008097 NAD(P) binding site [chemical binding]; other site 1235461008098 active site 1235461008099 glucose-6-phosphate isomerase; Provisional; Region: PRK04190 1235461008100 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 1235461008101 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1235461008102 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1235461008103 active site 1235461008104 intersubunit interface [polypeptide binding]; other site 1235461008105 catalytic residue [active] 1235461008106 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1235461008107 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1235461008108 NAD(P) binding pocket [chemical binding]; other site 1235461008109 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1235461008110 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1235461008111 putative ligand binding site [chemical binding]; other site 1235461008112 putative NAD binding site [chemical binding]; other site 1235461008113 catalytic site [active] 1235461008114 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1235461008115 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1235461008116 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1235461008117 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461008118 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1235461008119 putative active site [active] 1235461008120 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1235461008121 intersubunit interface [polypeptide binding]; other site 1235461008122 active site 1235461008123 catalytic residue [active] 1235461008124 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1235461008125 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 1235461008126 N- and C-terminal domain interface [polypeptide binding]; other site 1235461008127 active site 1235461008128 MgATP binding site [chemical binding]; other site 1235461008129 catalytic site [active] 1235461008130 metal binding site [ion binding]; metal-binding site 1235461008131 xylulose binding site [chemical binding]; other site 1235461008132 putative homodimer interface [polypeptide binding]; other site 1235461008133 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1235461008134 D-xylulose kinases, subgroup 3; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_3; cd07811 1235461008135 putative N- and C-terminal domain interface [polypeptide binding]; other site 1235461008136 putative active site [active] 1235461008137 putative MgATP binding site [chemical binding]; other site 1235461008138 catalytic site [active] 1235461008139 metal binding site [ion binding]; metal-binding site 1235461008140 putative xylulose binding site [chemical binding]; other site 1235461008141 putative homodimer interface [polypeptide binding]; other site 1235461008142 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1235461008143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461008144 NAD(P) binding site [chemical binding]; other site 1235461008145 active site 1235461008146 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461008147 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461008148 TM-ABC transporter signature motif; other site 1235461008149 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461008150 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461008151 Walker A/P-loop; other site 1235461008152 ATP binding site [chemical binding]; other site 1235461008153 Q-loop/lid; other site 1235461008154 ABC transporter signature motif; other site 1235461008155 Walker B; other site 1235461008156 D-loop; other site 1235461008157 H-loop/switch region; other site 1235461008158 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461008159 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461008160 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_9; cd06318 1235461008161 putative ligand binding site [chemical binding]; other site 1235461008162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461008163 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461008164 NAD(P) binding site [chemical binding]; other site 1235461008165 active site 1235461008166 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1235461008167 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461008168 DNA-binding site [nucleotide binding]; DNA binding site 1235461008169 UTRA domain; Region: UTRA; pfam07702 1235461008170 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1235461008171 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1235461008172 N- and C-terminal domain interface [polypeptide binding]; other site 1235461008173 active site 1235461008174 MgATP binding site [chemical binding]; other site 1235461008175 catalytic site [active] 1235461008176 metal binding site [ion binding]; metal-binding site 1235461008177 xylulose binding site [chemical binding]; other site 1235461008178 homodimer interface [polypeptide binding]; other site 1235461008179 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1235461008180 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1235461008181 TPP-binding site [chemical binding]; other site 1235461008182 dimer interface [polypeptide binding]; other site 1235461008183 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1235461008184 PYR/PP interface [polypeptide binding]; other site 1235461008185 dimer interface [polypeptide binding]; other site 1235461008186 TPP binding site [chemical binding]; other site 1235461008187 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1235461008188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461008189 putative transporter; Provisional; Region: PRK10504 1235461008190 putative substrate translocation pore; other site 1235461008191 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1235461008192 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461008193 substrate binding pocket [chemical binding]; other site 1235461008194 membrane-bound complex binding site; other site 1235461008195 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1235461008196 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461008197 dimer interface [polypeptide binding]; other site 1235461008198 conserved gate region; other site 1235461008199 putative PBP binding loops; other site 1235461008200 ABC-ATPase subunit interface; other site 1235461008201 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1235461008202 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1235461008203 Walker A/P-loop; other site 1235461008204 ATP binding site [chemical binding]; other site 1235461008205 Q-loop/lid; other site 1235461008206 ABC transporter signature motif; other site 1235461008207 Walker B; other site 1235461008208 D-loop; other site 1235461008209 H-loop/switch region; other site 1235461008210 Ferredoxin [Energy production and conversion]; Region: COG1146 1235461008211 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1235461008212 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1235461008213 putative catalytic residue [active] 1235461008214 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1235461008215 apolar tunnel; other site 1235461008216 heme binding site [chemical binding]; other site 1235461008217 dimerization interface [polypeptide binding]; other site 1235461008218 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1235461008219 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1235461008220 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1235461008221 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461008222 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1235461008223 putative active site [active] 1235461008224 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1235461008225 Isochorismatase family; Region: Isochorismatase; pfam00857 1235461008226 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1235461008227 catalytic triad [active] 1235461008228 conserved cis-peptide bond; other site 1235461008229 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1235461008230 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1235461008231 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461008232 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1235461008233 Walker A/P-loop; other site 1235461008234 ATP binding site [chemical binding]; other site 1235461008235 Q-loop/lid; other site 1235461008236 ABC transporter signature motif; other site 1235461008237 Walker B; other site 1235461008238 D-loop; other site 1235461008239 H-loop/switch region; other site 1235461008240 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1235461008241 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1235461008242 Walker A/P-loop; other site 1235461008243 ATP binding site [chemical binding]; other site 1235461008244 Q-loop/lid; other site 1235461008245 ABC transporter signature motif; other site 1235461008246 Walker B; other site 1235461008247 D-loop; other site 1235461008248 H-loop/switch region; other site 1235461008249 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1235461008250 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461008251 TM-ABC transporter signature motif; other site 1235461008252 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1235461008253 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1235461008254 TM-ABC transporter signature motif; other site 1235461008255 Isochorismatase family; Region: Isochorismatase; pfam00857 1235461008256 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1235461008257 catalytic triad [active] 1235461008258 conserved cis-peptide bond; other site 1235461008259 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1235461008260 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461008261 inhibitor-cofactor binding pocket; inhibition site 1235461008262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461008263 catalytic residue [active] 1235461008264 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1235461008265 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461008266 active site 1235461008267 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1235461008268 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461008269 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 1235461008270 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461008271 active site 1235461008272 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461008273 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1235461008274 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461008275 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461008276 dimer interface [polypeptide binding]; other site 1235461008277 conserved gate region; other site 1235461008278 putative PBP binding loops; other site 1235461008279 ABC-ATPase subunit interface; other site 1235461008280 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1235461008281 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461008282 dimer interface [polypeptide binding]; other site 1235461008283 conserved gate region; other site 1235461008284 putative PBP binding loops; other site 1235461008285 ABC-ATPase subunit interface; other site 1235461008286 cytosine deaminase; Provisional; Region: PRK05985 1235461008287 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1235461008288 active site 1235461008289 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 1235461008290 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461008291 active site 1235461008292 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1235461008293 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461008294 Walker A/P-loop; other site 1235461008295 ATP binding site [chemical binding]; other site 1235461008296 Q-loop/lid; other site 1235461008297 ABC transporter signature motif; other site 1235461008298 Walker B; other site 1235461008299 D-loop; other site 1235461008300 H-loop/switch region; other site 1235461008301 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461008302 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1235461008303 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461008304 Walker A/P-loop; other site 1235461008305 ATP binding site [chemical binding]; other site 1235461008306 Q-loop/lid; other site 1235461008307 ABC transporter signature motif; other site 1235461008308 Walker B; other site 1235461008309 D-loop; other site 1235461008310 H-loop/switch region; other site 1235461008311 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1235461008312 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1235461008313 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461008314 DNA-binding site [nucleotide binding]; DNA binding site 1235461008315 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461008316 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1235461008317 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1235461008318 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461008319 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461008320 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1235461008321 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1235461008322 [2Fe-2S] cluster binding site [ion binding]; other site 1235461008323 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461008324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461008325 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461008326 putative effector binding pocket; other site 1235461008327 putative dimerization interface [polypeptide binding]; other site 1235461008328 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 1235461008329 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1235461008330 Peptidase family M23; Region: Peptidase_M23; pfam01551 1235461008331 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1235461008332 Clp amino terminal domain; Region: Clp_N; pfam02861 1235461008333 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461008334 Walker A motif; other site 1235461008335 ATP binding site [chemical binding]; other site 1235461008336 Walker B motif; other site 1235461008337 arginine finger; other site 1235461008338 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461008339 Walker A motif; other site 1235461008340 ATP binding site [chemical binding]; other site 1235461008341 Walker B motif; other site 1235461008342 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1235461008343 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1235461008344 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1235461008345 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461008346 S-adenosylmethionine binding site [chemical binding]; other site 1235461008347 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1235461008348 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1235461008349 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1235461008350 RF-1 domain; Region: RF-1; pfam00472 1235461008351 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1235461008352 GAF domain; Region: GAF; pfam01590 1235461008353 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1235461008354 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1235461008355 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1235461008356 aspartate kinase; Reviewed; Region: PRK06635 1235461008357 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1235461008358 putative nucleotide binding site [chemical binding]; other site 1235461008359 putative catalytic residues [active] 1235461008360 putative Mg ion binding site [ion binding]; other site 1235461008361 putative aspartate binding site [chemical binding]; other site 1235461008362 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1235461008363 putative allosteric regulatory site; other site 1235461008364 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1235461008365 RibD C-terminal domain; Region: RibD_C; cl17279 1235461008366 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1235461008367 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1235461008368 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461008369 S-adenosylmethionine binding site [chemical binding]; other site 1235461008370 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 1235461008371 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1235461008372 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1235461008373 putative active site [active] 1235461008374 catalytic triad [active] 1235461008375 dimer interface [polypeptide binding]; other site 1235461008376 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1235461008377 GSH binding site [chemical binding]; other site 1235461008378 catalytic residues [active] 1235461008379 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1235461008380 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1235461008381 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1235461008382 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1235461008383 active site 1235461008384 8-oxo-dGMP binding site [chemical binding]; other site 1235461008385 nudix motif; other site 1235461008386 metal binding site [ion binding]; metal-binding site 1235461008387 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461008388 Coenzyme A binding pocket [chemical binding]; other site 1235461008389 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1235461008390 heterotetramer interface [polypeptide binding]; other site 1235461008391 active site pocket [active] 1235461008392 cleavage site 1235461008393 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1235461008394 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1235461008395 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1235461008396 SEC-C motif; Region: SEC-C; pfam02810 1235461008397 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1235461008398 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461008399 putative substrate translocation pore; other site 1235461008400 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1235461008401 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1235461008402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1235461008403 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1235461008404 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1235461008405 active site 1235461008406 acyl-activating enzyme (AAE) consensus motif; other site 1235461008407 putative CoA binding site [chemical binding]; other site 1235461008408 AMP binding site [chemical binding]; other site 1235461008409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 1235461008410 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1235461008411 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461008412 Coenzyme A binding pocket [chemical binding]; other site 1235461008413 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1235461008414 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1235461008415 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1235461008416 active site 1235461008417 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1235461008418 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1235461008419 minor groove reading motif; other site 1235461008420 helix-hairpin-helix signature motif; other site 1235461008421 substrate binding pocket [chemical binding]; other site 1235461008422 active site 1235461008423 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1235461008424 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1235461008425 active site 1235461008426 HIGH motif; other site 1235461008427 nucleotide binding site [chemical binding]; other site 1235461008428 active site 1235461008429 KMSKS motif; other site 1235461008430 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1235461008431 short chain dehydrogenase; Provisional; Region: PRK05993 1235461008432 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1235461008433 NADP binding site [chemical binding]; other site 1235461008434 active site 1235461008435 steroid binding site; other site 1235461008436 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1235461008437 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1235461008438 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1235461008439 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1235461008440 Ligand binding site [chemical binding]; other site 1235461008441 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1235461008442 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1235461008443 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1235461008444 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1235461008445 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 1235461008446 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1235461008447 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1235461008448 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1235461008449 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1235461008450 catalytic residues [active] 1235461008451 argininosuccinate lyase; Provisional; Region: PRK00855 1235461008452 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1235461008453 active sites [active] 1235461008454 tetramer interface [polypeptide binding]; other site 1235461008455 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1235461008456 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1235461008457 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1235461008458 active site 1235461008459 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1235461008460 substrate binding site [chemical binding]; other site 1235461008461 catalytic residues [active] 1235461008462 dimer interface [polypeptide binding]; other site 1235461008463 TIGR02302 family protein; Region: aProt_lowcomp 1235461008464 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1235461008465 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1235461008466 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461008467 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461008468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461008469 active site 1235461008470 phosphorylation site [posttranslational modification] 1235461008471 intermolecular recognition site; other site 1235461008472 dimerization interface [polypeptide binding]; other site 1235461008473 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1235461008474 active site 1235461008475 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1235461008476 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1235461008477 Walker A/P-loop; other site 1235461008478 ATP binding site [chemical binding]; other site 1235461008479 Q-loop/lid; other site 1235461008480 ABC transporter signature motif; other site 1235461008481 Walker B; other site 1235461008482 D-loop; other site 1235461008483 H-loop/switch region; other site 1235461008484 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1235461008485 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1235461008486 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1235461008487 putative active site [active] 1235461008488 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1235461008489 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1235461008490 putative acyl-acceptor binding pocket; other site 1235461008491 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1235461008492 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1235461008493 putative active site pocket [active] 1235461008494 dimerization interface [polypeptide binding]; other site 1235461008495 putative catalytic residue [active] 1235461008496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 1235461008497 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1235461008498 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1235461008499 prephenate dehydrogenase; Validated; Region: PRK08507 1235461008500 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1235461008501 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461008502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461008503 homodimer interface [polypeptide binding]; other site 1235461008504 catalytic residue [active] 1235461008505 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461008506 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461008507 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1235461008508 Uncharacterized conserved protein [Function unknown]; Region: COG3542 1235461008509 aromatic amino acid exporter; Provisional; Region: PRK11689 1235461008510 EamA-like transporter family; Region: EamA; pfam00892 1235461008511 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1235461008512 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1235461008513 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1235461008514 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 1235461008515 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1235461008516 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1235461008517 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 1235461008518 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1235461008519 metal ion-dependent adhesion site (MIDAS); other site 1235461008520 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1235461008521 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1235461008522 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1235461008523 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 1235461008524 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1235461008525 HSP70 interaction site [polypeptide binding]; other site 1235461008526 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1235461008527 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1235461008528 Domain of unknown function DUF21; Region: DUF21; pfam01595 1235461008529 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1235461008530 Transporter associated domain; Region: CorC_HlyC; smart01091 1235461008531 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1235461008532 active site 1235461008533 dimer interface [polypeptide binding]; other site 1235461008534 metal binding site [ion binding]; metal-binding site 1235461008535 shikimate kinase; Provisional; Region: PRK13946 1235461008536 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1235461008537 ADP binding site [chemical binding]; other site 1235461008538 magnesium binding site [ion binding]; other site 1235461008539 putative shikimate binding site; other site 1235461008540 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1235461008541 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1235461008542 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1235461008543 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461008544 active site 1235461008545 DNA binding site [nucleotide binding] 1235461008546 Int/Topo IB signature motif; other site 1235461008547 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1235461008548 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1235461008549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1235461008550 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1235461008551 CPxP motif; other site 1235461008552 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1235461008553 oligomeric interface; other site 1235461008554 putative active site [active] 1235461008555 homodimer interface [polypeptide binding]; other site 1235461008556 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1235461008557 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1235461008558 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1235461008559 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1235461008560 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1235461008561 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1235461008562 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1235461008563 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1235461008564 metal binding site [ion binding]; metal-binding site 1235461008565 putative dimer interface [polypeptide binding]; other site 1235461008566 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461008567 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461008568 putative DNA binding site [nucleotide binding]; other site 1235461008569 putative Zn2+ binding site [ion binding]; other site 1235461008570 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461008571 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1235461008572 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1235461008573 putative NAD(P) binding site [chemical binding]; other site 1235461008574 putative substrate binding site [chemical binding]; other site 1235461008575 catalytic Zn binding site [ion binding]; other site 1235461008576 structural Zn binding site [ion binding]; other site 1235461008577 dimer interface [polypeptide binding]; other site 1235461008578 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1235461008579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461008580 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461008581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461008582 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1235461008583 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461008584 hypothetical protein; Provisional; Region: PRK06148 1235461008585 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1235461008586 active site 1235461008587 ATP binding site [chemical binding]; other site 1235461008588 Peptidase family M23; Region: Peptidase_M23; pfam01551 1235461008589 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461008590 inhibitor-cofactor binding pocket; inhibition site 1235461008591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461008592 catalytic residue [active] 1235461008593 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1235461008594 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461008595 substrate binding pocket [chemical binding]; other site 1235461008596 membrane-bound complex binding site; other site 1235461008597 hinge residues; other site 1235461008598 hypothetical protein; Provisional; Region: PRK06149 1235461008599 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1235461008600 active site 1235461008601 substrate binding site [chemical binding]; other site 1235461008602 ATP binding site [chemical binding]; other site 1235461008603 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461008604 inhibitor-cofactor binding pocket; inhibition site 1235461008605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461008606 catalytic residue [active] 1235461008607 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1235461008608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461008609 DNA-binding site [nucleotide binding]; DNA binding site 1235461008610 UTRA domain; Region: UTRA; pfam07702 1235461008611 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1235461008612 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 1235461008613 active site 1235461008614 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1235461008615 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1235461008616 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1235461008617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461008618 dimer interface [polypeptide binding]; other site 1235461008619 conserved gate region; other site 1235461008620 ABC-ATPase subunit interface; other site 1235461008621 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461008622 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1235461008623 Walker A/P-loop; other site 1235461008624 ATP binding site [chemical binding]; other site 1235461008625 Q-loop/lid; other site 1235461008626 ABC transporter signature motif; other site 1235461008627 Walker B; other site 1235461008628 D-loop; other site 1235461008629 H-loop/switch region; other site 1235461008630 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1235461008631 active sites [active] 1235461008632 tetramer interface [polypeptide binding]; other site 1235461008633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1235461008634 Nucleoside recognition; Region: Gate; pfam07670 1235461008635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 1235461008636 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461008637 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1235461008638 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1235461008639 Int/Topo IB signature motif; other site 1235461008640 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1235461008641 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1235461008642 Phage capsid family; Region: Phage_capsid; pfam05065 1235461008643 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1235461008644 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 1235461008645 Ligand Binding Site [chemical binding]; other site 1235461008646 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1235461008647 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461008648 DNA binding residues [nucleotide binding] 1235461008649 dimerization interface [polypeptide binding]; other site 1235461008650 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1235461008651 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1235461008652 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461008653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461008654 active site 1235461008655 phosphorylation site [posttranslational modification] 1235461008656 intermolecular recognition site; other site 1235461008657 dimerization interface [polypeptide binding]; other site 1235461008658 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461008659 DNA binding site [nucleotide binding] 1235461008660 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461008661 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461008662 active site 1235461008663 phosphorylation site [posttranslational modification] 1235461008664 intermolecular recognition site; other site 1235461008665 dimerization interface [polypeptide binding]; other site 1235461008666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 1235461008667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 1235461008668 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1235461008669 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1235461008670 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1235461008671 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1235461008672 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1235461008673 RNA binding surface [nucleotide binding]; other site 1235461008674 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1235461008675 active site 1235461008676 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1235461008677 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1235461008678 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461008679 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461008680 DNA binding residues [nucleotide binding] 1235461008681 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1235461008682 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1235461008683 GDP-binding site [chemical binding]; other site 1235461008684 ACT binding site; other site 1235461008685 IMP binding site; other site 1235461008686 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461008687 EamA-like transporter family; Region: EamA; pfam00892 1235461008688 EamA-like transporter family; Region: EamA; pfam00892 1235461008689 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1235461008690 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1235461008691 ligand binding site [chemical binding]; other site 1235461008692 NAD binding site [chemical binding]; other site 1235461008693 dimerization interface [polypeptide binding]; other site 1235461008694 catalytic site [active] 1235461008695 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1235461008696 putative L-serine binding site [chemical binding]; other site 1235461008697 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 1235461008698 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461008699 catalytic residue [active] 1235461008700 serC leader; C770_GR4Chr2856 1235461008701 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1235461008702 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1235461008703 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1235461008704 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1235461008705 active site 1235461008706 substrate binding site [chemical binding]; other site 1235461008707 metal binding site [ion binding]; metal-binding site 1235461008708 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1235461008709 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461008710 Walker A motif; other site 1235461008711 ATP binding site [chemical binding]; other site 1235461008712 Walker B motif; other site 1235461008713 arginine finger; other site 1235461008714 Peptidase family M41; Region: Peptidase_M41; pfam01434 1235461008715 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1235461008716 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 1235461008717 Ligand Binding Site [chemical binding]; other site 1235461008718 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461008719 binding surface 1235461008720 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461008721 TPR motif; other site 1235461008722 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1235461008723 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1235461008724 ligand binding site [chemical binding]; other site 1235461008725 translocation protein TolB; Provisional; Region: tolB; PRK05137 1235461008726 TolB amino-terminal domain; Region: TolB_N; pfam04052 1235461008727 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1235461008728 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1235461008729 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1235461008730 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1235461008731 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1235461008732 TolR protein; Region: tolR; TIGR02801 1235461008733 TolQ protein; Region: tolQ; TIGR02796 1235461008734 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1235461008735 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1235461008736 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1235461008737 active site 1235461008738 DNA binding site [nucleotide binding] 1235461008739 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1235461008740 DNA binding site [nucleotide binding] 1235461008741 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1235461008742 nucleotide binding site [chemical binding]; other site 1235461008743 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1235461008744 active site 1235461008745 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 1235461008746 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461008747 NAD binding site [chemical binding]; other site 1235461008748 substrate binding site [chemical binding]; other site 1235461008749 active site 1235461008750 Glycogenin belongs the GT 8 family and initiates the biosynthesis of glycogen; Region: GT8_Glycogenin; cd02537 1235461008751 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1235461008752 substrate binding site; other site 1235461008753 Manganese binding site; other site 1235461008754 dimer interface; other site 1235461008755 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461008756 extended (e) SDRs; Region: SDR_e; cd08946 1235461008757 NAD(P) binding site [chemical binding]; other site 1235461008758 active site 1235461008759 substrate binding site [chemical binding]; other site 1235461008760 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1235461008761 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461008762 putative active site [active] 1235461008763 putative metal binding site [ion binding]; other site 1235461008764 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1235461008765 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461008766 Walker A motif; other site 1235461008767 ATP binding site [chemical binding]; other site 1235461008768 Walker B motif; other site 1235461008769 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1235461008770 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1235461008771 RuvA N terminal domain; Region: RuvA_N; pfam01330 1235461008772 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1235461008773 active site 1235461008774 putative DNA-binding cleft [nucleotide binding]; other site 1235461008775 dimer interface [polypeptide binding]; other site 1235461008776 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1235461008777 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1235461008778 hypothetical protein; Validated; Region: PRK00110 1235461008779 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1235461008780 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 1235461008781 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1235461008782 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461008783 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461008784 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461008785 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1235461008786 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461008787 putative active site [active] 1235461008788 metal binding site [ion binding]; metal-binding site 1235461008789 homodimer binding site [polypeptide binding]; other site 1235461008790 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1235461008791 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1235461008792 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1235461008793 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 1235461008794 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1235461008795 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1235461008796 TPP-binding site [chemical binding]; other site 1235461008797 dimer interface [polypeptide binding]; other site 1235461008798 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1235461008799 PYR/PP interface [polypeptide binding]; other site 1235461008800 dimer interface [polypeptide binding]; other site 1235461008801 TPP binding site [chemical binding]; other site 1235461008802 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1235461008803 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1235461008804 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1235461008805 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1235461008806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3554 1235461008807 Phosphoglycerate kinase; Region: PGK; pfam00162 1235461008808 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1235461008809 substrate binding site [chemical binding]; other site 1235461008810 hinge regions; other site 1235461008811 ADP binding site [chemical binding]; other site 1235461008812 catalytic site [active] 1235461008813 Fructose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: COG3588 1235461008814 catalytic residue [active] 1235461008815 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461008816 cyclase homology domain; Region: CHD; cd07302 1235461008817 nucleotidyl binding site; other site 1235461008818 metal binding site [ion binding]; metal-binding site 1235461008819 dimer interface [polypeptide binding]; other site 1235461008820 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461008821 TPR repeat; Region: TPR_11; pfam13414 1235461008822 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461008823 TPR motif; other site 1235461008824 TPR repeat; Region: TPR_11; pfam13414 1235461008825 binding surface 1235461008826 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461008827 binding surface 1235461008828 TPR motif; other site 1235461008829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461008830 putative substrate translocation pore; other site 1235461008831 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 1235461008832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 1235461008833 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1235461008834 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1235461008835 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461008836 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1235461008837 Walker A/P-loop; other site 1235461008838 ATP binding site [chemical binding]; other site 1235461008839 Q-loop/lid; other site 1235461008840 ABC transporter signature motif; other site 1235461008841 Walker B; other site 1235461008842 D-loop; other site 1235461008843 H-loop/switch region; other site 1235461008844 hypothetical protein; Validated; Region: PRK09039 1235461008845 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1235461008846 ligand binding site [chemical binding]; other site 1235461008847 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461008848 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1235461008849 active site 1235461008850 dimerization interface [polypeptide binding]; other site 1235461008851 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1235461008852 Sel1-like repeats; Region: SEL1; smart00671 1235461008853 Sel1-like repeats; Region: SEL1; smart00671 1235461008854 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1235461008855 thiamine phosphate binding site [chemical binding]; other site 1235461008856 active site 1235461008857 pyrophosphate binding site [ion binding]; other site 1235461008858 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1235461008859 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461008860 dimerization interface [polypeptide binding]; other site 1235461008861 putative DNA binding site [nucleotide binding]; other site 1235461008862 putative Zn2+ binding site [ion binding]; other site 1235461008863 Uncharacterized small protein [Function unknown]; Region: COG5570 1235461008864 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 1235461008865 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1235461008866 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1235461008867 ATP-grasp domain; Region: ATP-grasp; pfam02222 1235461008868 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1235461008869 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461008870 TPR repeat; Region: TPR_11; pfam13414 1235461008871 binding surface 1235461008872 TPR motif; other site 1235461008873 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461008874 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461008875 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461008876 pyruvate kinase; Provisional; Region: PRK06247 1235461008877 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1235461008878 domain interfaces; other site 1235461008879 active site 1235461008880 Predicted integral membrane protein [Function unknown]; Region: COG5480 1235461008881 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1235461008882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1235461008883 hypothetical protein; Provisional; Region: PRK13694 1235461008884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1235461008885 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 1235461008886 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1235461008887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461008888 active site 1235461008889 phosphorylation site [posttranslational modification] 1235461008890 intermolecular recognition site; other site 1235461008891 dimerization interface [polypeptide binding]; other site 1235461008892 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461008893 Walker A motif; other site 1235461008894 ATP binding site [chemical binding]; other site 1235461008895 Walker B motif; other site 1235461008896 arginine finger; other site 1235461008897 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1235461008898 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1235461008899 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1235461008900 active site 1235461008901 Zn binding site [ion binding]; other site 1235461008902 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1235461008903 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1235461008904 hypothetical protein; Provisional; Region: PRK07546 1235461008905 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1235461008906 substrate-cofactor binding pocket; other site 1235461008907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461008908 catalytic residue [active] 1235461008909 PAS fold; Region: PAS_7; pfam12860 1235461008910 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461008911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461008912 metal binding site [ion binding]; metal-binding site 1235461008913 active site 1235461008914 I-site; other site 1235461008915 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 1235461008916 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1235461008917 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1235461008918 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 1235461008919 active site 1235461008920 metal binding site [ion binding]; metal-binding site 1235461008921 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1235461008922 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1235461008923 ferrochelatase; Reviewed; Region: hemH; PRK00035 1235461008924 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1235461008925 C-terminal domain interface [polypeptide binding]; other site 1235461008926 active site 1235461008927 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1235461008928 active site 1235461008929 N-terminal domain interface [polypeptide binding]; other site 1235461008930 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1235461008931 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1235461008932 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1235461008933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 1235461008934 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1235461008935 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1235461008936 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1235461008937 active site 1235461008938 tetramer interface; other site 1235461008939 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1235461008940 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461008941 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461008942 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461008943 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 1235461008944 active site 1235461008945 catalytic triad [active] 1235461008946 oxyanion hole [active] 1235461008947 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1235461008948 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1235461008949 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1235461008950 active site 1235461008951 dimer interface [polypeptide binding]; other site 1235461008952 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1235461008953 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1235461008954 active site 1235461008955 FMN binding site [chemical binding]; other site 1235461008956 substrate binding site [chemical binding]; other site 1235461008957 3Fe-4S cluster binding site [ion binding]; other site 1235461008958 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1235461008959 domain interface; other site 1235461008960 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1235461008961 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1235461008962 tetramer interface [polypeptide binding]; other site 1235461008963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461008964 catalytic residue [active] 1235461008965 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1235461008966 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1235461008967 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1235461008968 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1235461008969 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461008970 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461008971 DNA binding residues [nucleotide binding] 1235461008972 dimerization interface [polypeptide binding]; other site 1235461008973 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 1235461008974 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461008975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461008976 dimer interface [polypeptide binding]; other site 1235461008977 conserved gate region; other site 1235461008978 putative PBP binding loops; other site 1235461008979 ABC-ATPase subunit interface; other site 1235461008980 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1235461008981 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461008982 dimer interface [polypeptide binding]; other site 1235461008983 conserved gate region; other site 1235461008984 putative PBP binding loops; other site 1235461008985 ABC-ATPase subunit interface; other site 1235461008986 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461008987 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461008988 Walker A/P-loop; other site 1235461008989 ATP binding site [chemical binding]; other site 1235461008990 Q-loop/lid; other site 1235461008991 ABC transporter signature motif; other site 1235461008992 Walker B; other site 1235461008993 D-loop; other site 1235461008994 H-loop/switch region; other site 1235461008995 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461008996 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461008997 Walker A/P-loop; other site 1235461008998 ATP binding site [chemical binding]; other site 1235461008999 Q-loop/lid; other site 1235461009000 ABC transporter signature motif; other site 1235461009001 Walker B; other site 1235461009002 D-loop; other site 1235461009003 H-loop/switch region; other site 1235461009004 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461009005 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1235461009006 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461009007 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1235461009008 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1235461009009 putative dimer interface [polypeptide binding]; other site 1235461009010 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1235461009011 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461009012 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461009013 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1235461009014 active site 1235461009015 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 1235461009016 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461009017 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461009018 active site 1235461009019 phosphorylation site [posttranslational modification] 1235461009020 intermolecular recognition site; other site 1235461009021 dimerization interface [polypeptide binding]; other site 1235461009022 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1235461009023 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461009024 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1235461009025 pseudoazurin; Region: pseudoazurin; TIGR02375 1235461009026 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461009027 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1235461009028 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1235461009029 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 1235461009030 Moco binding site; other site 1235461009031 metal coordination site [ion binding]; other site 1235461009032 dimerization interface [polypeptide binding]; other site 1235461009033 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1235461009034 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1235461009035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461009036 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461009037 DNA binding residues [nucleotide binding] 1235461009038 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461009039 MarR family; Region: MarR; pfam01047 1235461009040 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 1235461009041 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461009042 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1235461009043 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461009044 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1235461009045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461009046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461009047 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461009048 dimerization interface [polypeptide binding]; other site 1235461009049 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461009050 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461009051 active site 1235461009052 catalytic tetrad [active] 1235461009053 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1235461009054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1235461009055 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1235461009056 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1235461009057 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1235461009058 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1235461009059 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1235461009060 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1235461009061 metal ion-dependent adhesion site (MIDAS); other site 1235461009062 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1235461009063 homodimer interface [polypeptide binding]; other site 1235461009064 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1235461009065 active site pocket [active] 1235461009066 glycogen branching enzyme; Provisional; Region: PRK05402 1235461009067 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1235461009068 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1235461009069 active site 1235461009070 catalytic site [active] 1235461009071 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1235461009072 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1235461009073 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1235461009074 ligand binding site; other site 1235461009075 oligomer interface; other site 1235461009076 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1235461009077 dimer interface [polypeptide binding]; other site 1235461009078 N-terminal domain interface [polypeptide binding]; other site 1235461009079 sulfate 1 binding site; other site 1235461009080 glycogen synthase; Provisional; Region: glgA; PRK00654 1235461009081 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1235461009082 ADP-binding pocket [chemical binding]; other site 1235461009083 homodimer interface [polypeptide binding]; other site 1235461009084 phosphoglucomutase; Region: PLN02307 1235461009085 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 1235461009086 substrate binding site [chemical binding]; other site 1235461009087 dimer interface [polypeptide binding]; other site 1235461009088 active site 1235461009089 metal binding site [ion binding]; metal-binding site 1235461009090 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1235461009091 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1235461009092 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1235461009093 active site 1235461009094 catalytic site [active] 1235461009095 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1235461009096 putative active site [active] 1235461009097 putative catalytic site [active] 1235461009098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4427 1235461009099 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1235461009100 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 1235461009101 NAD binding site [chemical binding]; other site 1235461009102 catalytic Zn binding site [ion binding]; other site 1235461009103 substrate binding site [chemical binding]; other site 1235461009104 structural Zn binding site [ion binding]; other site 1235461009105 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1235461009106 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1235461009107 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1235461009108 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461009109 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1235461009110 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1235461009111 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461009112 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1235461009113 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1235461009114 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1235461009115 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461009116 TPR motif; other site 1235461009117 binding surface 1235461009118 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461009119 binding surface 1235461009120 TPR motif; other site 1235461009121 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461009122 binding surface 1235461009123 TPR motif; other site 1235461009124 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1235461009125 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461009126 cyclase homology domain; Region: CHD; cd07302 1235461009127 nucleotidyl binding site; other site 1235461009128 metal binding site [ion binding]; metal-binding site 1235461009129 dimer interface [polypeptide binding]; other site 1235461009130 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1235461009131 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1235461009132 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1235461009133 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1235461009134 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1235461009135 ligand binding site [chemical binding]; other site 1235461009136 homodimer interface [polypeptide binding]; other site 1235461009137 NAD(P) binding site [chemical binding]; other site 1235461009138 trimer interface B [polypeptide binding]; other site 1235461009139 trimer interface A [polypeptide binding]; other site 1235461009140 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 1235461009141 PAS domain; Region: PAS; smart00091 1235461009142 PAS fold; Region: PAS_7; pfam12860 1235461009143 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461009144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461009145 metal binding site [ion binding]; metal-binding site 1235461009146 active site 1235461009147 I-site; other site 1235461009148 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461009149 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1235461009150 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1235461009151 catalytic triad [active] 1235461009152 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1235461009153 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1235461009154 putative ligand binding site [chemical binding]; other site 1235461009155 NAD binding site [chemical binding]; other site 1235461009156 catalytic site [active] 1235461009157 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461009158 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461009159 DNA binding site [nucleotide binding] 1235461009160 domain linker motif; other site 1235461009161 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1235461009162 putative dimerization interface [polypeptide binding]; other site 1235461009163 putative ligand binding site [chemical binding]; other site 1235461009164 MarR family; Region: MarR_2; cl17246 1235461009165 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 1235461009166 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1235461009167 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1235461009168 P-loop, Walker A motif; other site 1235461009169 Base recognition motif; other site 1235461009170 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1235461009171 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1235461009172 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1235461009173 structural tetrad; other site 1235461009174 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461009175 Predicted acetyltransferase [General function prediction only]; Region: COG3153 1235461009176 Coenzyme A binding pocket [chemical binding]; other site 1235461009177 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1235461009178 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1235461009179 dimer interface [polypeptide binding]; other site 1235461009180 active site 1235461009181 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1235461009182 catalytic residues [active] 1235461009183 substrate binding site [chemical binding]; other site 1235461009184 speF leader; C770_GR4Chr3003 1235461009185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461009186 LysR family transcriptional regulator; Provisional; Region: PRK14997 1235461009187 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461009188 putative effector binding pocket; other site 1235461009189 dimerization interface [polypeptide binding]; other site 1235461009190 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 1235461009191 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1235461009192 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1235461009193 putative active site [active] 1235461009194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4423 1235461009195 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1235461009196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1235461009197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1235461009198 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1235461009199 putative metal binding site [ion binding]; other site 1235461009200 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1235461009201 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1235461009202 active site 1235461009203 intersubunit interface [polypeptide binding]; other site 1235461009204 catalytic residue [active] 1235461009205 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 1235461009206 putative active site [active] 1235461009207 putative metal binding residues [ion binding]; other site 1235461009208 signature motif; other site 1235461009209 putative dimer interface [polypeptide binding]; other site 1235461009210 putative phosphate binding site [ion binding]; other site 1235461009211 CHAD domain; Region: CHAD; pfam05235 1235461009212 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1235461009213 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1235461009214 active site residue [active] 1235461009215 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1235461009216 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1235461009217 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009218 dimer interface [polypeptide binding]; other site 1235461009219 conserved gate region; other site 1235461009220 ABC-ATPase subunit interface; other site 1235461009221 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1235461009222 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1235461009223 Walker A/P-loop; other site 1235461009224 ATP binding site [chemical binding]; other site 1235461009225 Q-loop/lid; other site 1235461009226 ABC transporter signature motif; other site 1235461009227 Walker B; other site 1235461009228 D-loop; other site 1235461009229 H-loop/switch region; other site 1235461009230 NIL domain; Region: NIL; pfam09383 1235461009231 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 1235461009232 beta-galactosidase; Region: BGL; TIGR03356 1235461009233 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461009234 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461009235 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461009236 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461009237 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1235461009238 xylose isomerase; Provisional; Region: PRK05474 1235461009239 xylose isomerase; Region: xylose_isom_A; TIGR02630 1235461009240 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1235461009241 N- and C-terminal domain interface [polypeptide binding]; other site 1235461009242 D-xylulose kinase; Region: XylB; TIGR01312 1235461009243 active site 1235461009244 MgATP binding site [chemical binding]; other site 1235461009245 catalytic site [active] 1235461009246 metal binding site [ion binding]; metal-binding site 1235461009247 xylulose binding site [chemical binding]; other site 1235461009248 homodimer interface [polypeptide binding]; other site 1235461009249 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461009250 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461009251 DNA binding site [nucleotide binding] 1235461009252 domain linker motif; other site 1235461009253 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1235461009254 putative ligand binding site [chemical binding]; other site 1235461009255 Cytolysin, a secreted calcineurin-like phosphatase [Cell motility and secretion]; Region: COG5555 1235461009256 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1235461009257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461009258 putative substrate translocation pore; other site 1235461009259 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461009260 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1235461009261 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461009262 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461009263 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461009264 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461009265 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1235461009266 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461009267 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461009268 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461009269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1235461009270 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1235461009271 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1235461009272 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1235461009273 HIGH motif; other site 1235461009274 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1235461009275 active site 1235461009276 KMSKS motif; other site 1235461009277 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1235461009278 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1235461009279 dimer interface [polypeptide binding]; other site 1235461009280 putative anticodon binding site; other site 1235461009281 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1235461009282 motif 1; other site 1235461009283 active site 1235461009284 motif 2; other site 1235461009285 motif 3; other site 1235461009286 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1235461009287 active site 1235461009288 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1235461009289 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461009290 ATP-dependent DNA ligase; Validated; Region: PRK09247 1235461009291 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1235461009292 active site 1235461009293 DNA binding site [nucleotide binding] 1235461009294 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1235461009295 DNA binding site [nucleotide binding] 1235461009296 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1235461009297 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1235461009298 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461009299 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1235461009300 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1235461009301 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1235461009302 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1235461009303 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1235461009304 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461009305 Monovalent Cation (K+ or Na+):Proton Antiporter-3 (CPA3) subfamily; Region: 2a6301s05; TIGR00942 1235461009306 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1235461009307 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1235461009308 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1235461009309 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461009310 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461009311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461009312 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461009313 putative effector binding pocket; other site 1235461009314 dimerization interface [polypeptide binding]; other site 1235461009315 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1235461009316 active site 1235461009317 SAM binding site [chemical binding]; other site 1235461009318 homodimer interface [polypeptide binding]; other site 1235461009319 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1235461009320 active site 1235461009321 putative homodimer interface [polypeptide binding]; other site 1235461009322 SAM binding site [chemical binding]; other site 1235461009323 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1235461009324 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 1235461009325 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1235461009326 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 1235461009327 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1235461009328 active site 1235461009329 SAM binding site [chemical binding]; other site 1235461009330 homodimer interface [polypeptide binding]; other site 1235461009331 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1235461009332 active site 1235461009333 SAM binding site [chemical binding]; other site 1235461009334 homodimer interface [polypeptide binding]; other site 1235461009335 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1235461009336 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1235461009337 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1235461009338 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1235461009339 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1235461009340 active site 1235461009341 SAM binding site [chemical binding]; other site 1235461009342 homodimer interface [polypeptide binding]; other site 1235461009343 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1235461009344 ligand binding site [chemical binding]; other site 1235461009345 active site 1235461009346 UGI interface [polypeptide binding]; other site 1235461009347 catalytic site [active] 1235461009348 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1235461009349 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461009350 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1235461009351 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009352 dimer interface [polypeptide binding]; other site 1235461009353 conserved gate region; other site 1235461009354 putative PBP binding loops; other site 1235461009355 ABC-ATPase subunit interface; other site 1235461009356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461009357 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1235461009358 Walker A/P-loop; other site 1235461009359 ATP binding site [chemical binding]; other site 1235461009360 Q-loop/lid; other site 1235461009361 ABC transporter signature motif; other site 1235461009362 Walker B; other site 1235461009363 D-loop; other site 1235461009364 H-loop/switch region; other site 1235461009365 TOBE domain; Region: TOBE; pfam03459 1235461009366 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1235461009367 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461009368 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461009369 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1235461009370 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1235461009371 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1235461009372 tetramer interface [polypeptide binding]; other site 1235461009373 TPP-binding site [chemical binding]; other site 1235461009374 heterodimer interface [polypeptide binding]; other site 1235461009375 phosphorylation loop region [posttranslational modification] 1235461009376 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1235461009377 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1235461009378 alpha subunit interface [polypeptide binding]; other site 1235461009379 TPP binding site [chemical binding]; other site 1235461009380 heterodimer interface [polypeptide binding]; other site 1235461009381 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1235461009382 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1235461009383 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1235461009384 E3 interaction surface; other site 1235461009385 lipoyl attachment site [posttranslational modification]; other site 1235461009386 e3 binding domain; Region: E3_binding; pfam02817 1235461009387 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1235461009388 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1235461009389 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461009390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461009391 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1235461009392 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1235461009393 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1235461009394 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1235461009395 putative active site [active] 1235461009396 putative substrate binding site [chemical binding]; other site 1235461009397 putative cosubstrate binding site; other site 1235461009398 catalytic site [active] 1235461009399 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1235461009400 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1235461009401 C-terminal domain interface [polypeptide binding]; other site 1235461009402 GSH binding site (G-site) [chemical binding]; other site 1235461009403 putative dimer interface [polypeptide binding]; other site 1235461009404 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1235461009405 dimer interface [polypeptide binding]; other site 1235461009406 N-terminal domain interface [polypeptide binding]; other site 1235461009407 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1235461009408 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1235461009409 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1235461009410 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1235461009411 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1235461009412 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1235461009413 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461009414 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461009415 putative DNA binding site [nucleotide binding]; other site 1235461009416 putative Zn2+ binding site [ion binding]; other site 1235461009417 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461009418 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1235461009419 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1235461009420 dimer interface [polypeptide binding]; other site 1235461009421 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1235461009422 active site 1235461009423 Fe binding site [ion binding]; other site 1235461009424 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461009425 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461009426 DNA binding residues [nucleotide binding] 1235461009427 dimerization interface [polypeptide binding]; other site 1235461009428 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1235461009429 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461009430 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1235461009431 Walker A/P-loop; other site 1235461009432 ATP binding site [chemical binding]; other site 1235461009433 Q-loop/lid; other site 1235461009434 ABC transporter signature motif; other site 1235461009435 Walker B; other site 1235461009436 D-loop; other site 1235461009437 H-loop/switch region; other site 1235461009438 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1235461009439 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461009440 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461009441 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461009442 TPR motif; other site 1235461009443 binding surface 1235461009444 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461009445 binding surface 1235461009446 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461009447 TPR motif; other site 1235461009448 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461009449 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1235461009450 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461009451 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461009452 metal binding site [ion binding]; metal-binding site 1235461009453 active site 1235461009454 I-site; other site 1235461009455 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461009456 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1235461009457 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461009458 DNA-binding site [nucleotide binding]; DNA binding site 1235461009459 UTRA domain; Region: UTRA; pfam07702 1235461009460 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1235461009461 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 1235461009462 putative active site [active] 1235461009463 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1235461009464 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461009465 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 1235461009466 substrate binding site [chemical binding]; other site 1235461009467 ATP binding site [chemical binding]; other site 1235461009468 Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]; Region: COG5573 1235461009469 putative active site [active] 1235461009470 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1235461009471 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461009472 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1235461009473 Walker A/P-loop; other site 1235461009474 ATP binding site [chemical binding]; other site 1235461009475 Q-loop/lid; other site 1235461009476 ABC transporter signature motif; other site 1235461009477 Walker B; other site 1235461009478 D-loop; other site 1235461009479 H-loop/switch region; other site 1235461009480 EamA-like transporter family; Region: EamA; pfam00892 1235461009481 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461009482 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009483 dimer interface [polypeptide binding]; other site 1235461009484 conserved gate region; other site 1235461009485 putative PBP binding loops; other site 1235461009486 ABC-ATPase subunit interface; other site 1235461009487 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461009488 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461009489 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461009490 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461009491 substrate binding pocket [chemical binding]; other site 1235461009492 membrane-bound complex binding site; other site 1235461009493 hinge residues; other site 1235461009494 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461009495 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1235461009496 AP (apurinic/apyrimidinic) site pocket; other site 1235461009497 DNA interaction; other site 1235461009498 Metal-binding active site; metal-binding site 1235461009499 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1235461009500 Glycerophosphodiester phosphodiesterase domain of putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_pAtGDE_like; cd08565 1235461009501 active site 1235461009502 catalytic site [active] 1235461009503 metal binding site [ion binding]; metal-binding site 1235461009504 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461009505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461009506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009507 dimer interface [polypeptide binding]; other site 1235461009508 conserved gate region; other site 1235461009509 putative PBP binding loops; other site 1235461009510 ABC-ATPase subunit interface; other site 1235461009511 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461009512 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009513 dimer interface [polypeptide binding]; other site 1235461009514 conserved gate region; other site 1235461009515 putative PBP binding loops; other site 1235461009516 ABC-ATPase subunit interface; other site 1235461009517 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1235461009518 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461009519 Walker A/P-loop; other site 1235461009520 ATP binding site [chemical binding]; other site 1235461009521 Q-loop/lid; other site 1235461009522 ABC transporter signature motif; other site 1235461009523 Walker B; other site 1235461009524 D-loop; other site 1235461009525 H-loop/switch region; other site 1235461009526 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1235461009527 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1235461009528 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461009529 Walker A/P-loop; other site 1235461009530 ATP binding site [chemical binding]; other site 1235461009531 Q-loop/lid; other site 1235461009532 ABC transporter signature motif; other site 1235461009533 Walker B; other site 1235461009534 D-loop; other site 1235461009535 H-loop/switch region; other site 1235461009536 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1235461009537 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461009538 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_10; cd08515 1235461009539 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1235461009540 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461009541 DNA binding residues [nucleotide binding] 1235461009542 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1235461009543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461009544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461009545 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1235461009546 dimerization interface [polypeptide binding]; other site 1235461009547 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1235461009548 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1235461009549 putative ligand binding site [chemical binding]; other site 1235461009550 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461009551 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1235461009552 Walker A/P-loop; other site 1235461009553 ATP binding site [chemical binding]; other site 1235461009554 Q-loop/lid; other site 1235461009555 ABC transporter signature motif; other site 1235461009556 Walker B; other site 1235461009557 D-loop; other site 1235461009558 H-loop/switch region; other site 1235461009559 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1235461009560 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1235461009561 Walker A/P-loop; other site 1235461009562 ATP binding site [chemical binding]; other site 1235461009563 Q-loop/lid; other site 1235461009564 ABC transporter signature motif; other site 1235461009565 Walker B; other site 1235461009566 D-loop; other site 1235461009567 H-loop/switch region; other site 1235461009568 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461009569 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1235461009570 TM-ABC transporter signature motif; other site 1235461009571 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1235461009572 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1235461009573 TM-ABC transporter signature motif; other site 1235461009574 choline dehydrogenase; Validated; Region: PRK02106 1235461009575 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1235461009576 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1235461009577 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461009578 MULE transposase domain; Region: MULE; pfam10551 1235461009579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461009580 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461009581 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461009582 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1235461009583 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1235461009584 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1235461009585 substrate binding pocket [chemical binding]; other site 1235461009586 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1235461009587 B12 binding site [chemical binding]; other site 1235461009588 cobalt ligand [ion binding]; other site 1235461009589 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1235461009590 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1235461009591 dimerization interface [polypeptide binding]; other site 1235461009592 putative active cleft [active] 1235461009593 hypothetical protein; Provisional; Region: PRK02487 1235461009594 fructokinase; Reviewed; Region: PRK09557 1235461009595 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1235461009596 nucleotide binding site [chemical binding]; other site 1235461009597 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461009598 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1235461009599 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1235461009600 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1235461009601 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1235461009602 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1235461009603 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1235461009604 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1235461009605 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1235461009606 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1235461009607 substrate-cofactor binding pocket; other site 1235461009608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461009609 catalytic residue [active] 1235461009610 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1235461009611 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1235461009612 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461009613 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461009614 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461009615 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461009616 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461009617 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461009618 cyclase homology domain; Region: CHD; cd07302 1235461009619 nucleotidyl binding site; other site 1235461009620 metal binding site [ion binding]; metal-binding site 1235461009621 dimer interface [polypeptide binding]; other site 1235461009622 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461009623 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1235461009624 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461009625 TPR motif; other site 1235461009626 binding surface 1235461009627 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461009628 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1235461009629 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1235461009630 Surface antigen; Region: Bac_surface_Ag; pfam01103 1235461009631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1235461009632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1235461009633 Family of unknown function (DUF490); Region: DUF490; pfam04357 1235461009634 Family of unknown function (DUF490); Region: DUF490; pfam04357 1235461009635 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1235461009636 Phosphotransferase enzyme family; Region: APH; pfam01636 1235461009637 active site 1235461009638 ATP binding site [chemical binding]; other site 1235461009639 antibiotic binding site [chemical binding]; other site 1235461009640 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 1235461009641 putative dimer interface [polypeptide binding]; other site 1235461009642 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461009643 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461009644 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1235461009645 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461009646 Arginase family; Region: Arginase; cd09989 1235461009647 active site 1235461009648 Mn binding site [ion binding]; other site 1235461009649 oligomer interface [polypeptide binding]; other site 1235461009650 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1235461009651 putative CheA interaction surface; other site 1235461009652 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461009653 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461009654 putative active site [active] 1235461009655 heme pocket [chemical binding]; other site 1235461009656 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461009657 putative active site [active] 1235461009658 heme pocket [chemical binding]; other site 1235461009659 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1235461009660 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1235461009661 dimer interface [polypeptide binding]; other site 1235461009662 putative CheW interface [polypeptide binding]; other site 1235461009663 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1235461009664 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1235461009665 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1235461009666 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461009667 catalytic loop [active] 1235461009668 iron binding site [ion binding]; other site 1235461009669 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1235461009670 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1235461009671 [4Fe-4S] binding site [ion binding]; other site 1235461009672 molybdopterin cofactor binding site; other site 1235461009673 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1235461009674 molybdopterin cofactor binding site; other site 1235461009675 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1235461009676 putative dimer interface [polypeptide binding]; other site 1235461009677 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1235461009678 SLBB domain; Region: SLBB; pfam10531 1235461009679 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1235461009680 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1235461009681 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1235461009682 putative dimer interface [polypeptide binding]; other site 1235461009683 [2Fe-2S] cluster binding site [ion binding]; other site 1235461009684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461009685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461009686 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461009687 dimerization interface [polypeptide binding]; other site 1235461009688 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1235461009689 classical (c) SDRs; Region: SDR_c; cd05233 1235461009690 NAD(P) binding site [chemical binding]; other site 1235461009691 active site 1235461009692 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1235461009693 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1235461009694 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1235461009695 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1235461009696 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461009697 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1235461009698 Walker A/P-loop; other site 1235461009699 ATP binding site [chemical binding]; other site 1235461009700 Q-loop/lid; other site 1235461009701 ABC transporter signature motif; other site 1235461009702 Walker B; other site 1235461009703 D-loop; other site 1235461009704 H-loop/switch region; other site 1235461009705 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461009706 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1235461009707 Walker A/P-loop; other site 1235461009708 ATP binding site [chemical binding]; other site 1235461009709 Q-loop/lid; other site 1235461009710 ABC transporter signature motif; other site 1235461009711 Walker B; other site 1235461009712 D-loop; other site 1235461009713 H-loop/switch region; other site 1235461009714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009715 dimer interface [polypeptide binding]; other site 1235461009716 conserved gate region; other site 1235461009717 putative PBP binding loops; other site 1235461009718 ABC-ATPase subunit interface; other site 1235461009719 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461009720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009721 dimer interface [polypeptide binding]; other site 1235461009722 conserved gate region; other site 1235461009723 putative PBP binding loops; other site 1235461009724 ABC-ATPase subunit interface; other site 1235461009725 Predicted small integral membrane protein [Function unknown]; Region: COG5477 1235461009726 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461009727 xanthine permease; Region: pbuX; TIGR03173 1235461009728 xanthine permease; Region: pbuX; TIGR03173 1235461009729 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1235461009730 EamA-like transporter family; Region: EamA; pfam00892 1235461009731 EamA-like transporter family; Region: EamA; pfam00892 1235461009732 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1235461009733 metal binding site 2 [ion binding]; metal-binding site 1235461009734 putative DNA binding helix; other site 1235461009735 metal binding site 1 [ion binding]; metal-binding site 1235461009736 dimer interface [polypeptide binding]; other site 1235461009737 structural Zn2+ binding site [ion binding]; other site 1235461009738 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1235461009739 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1235461009740 metal binding site [ion binding]; metal-binding site 1235461009741 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 1235461009742 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1235461009743 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1235461009744 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461009745 ABC-ATPase subunit interface; other site 1235461009746 dimer interface [polypeptide binding]; other site 1235461009747 putative PBP binding regions; other site 1235461009748 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1235461009749 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461009750 ABC-ATPase subunit interface; other site 1235461009751 dimer interface [polypeptide binding]; other site 1235461009752 putative PBP binding regions; other site 1235461009753 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461009754 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1235461009755 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461009756 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1235461009757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461009758 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1235461009759 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1235461009760 gamma subunit interface [polypeptide binding]; other site 1235461009761 epsilon subunit interface [polypeptide binding]; other site 1235461009762 LBP interface [polypeptide binding]; other site 1235461009763 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1235461009764 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1235461009765 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1235461009766 alpha subunit interaction interface [polypeptide binding]; other site 1235461009767 Walker A motif; other site 1235461009768 ATP binding site [chemical binding]; other site 1235461009769 Walker B motif; other site 1235461009770 inhibitor binding site; inhibition site 1235461009771 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1235461009772 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1235461009773 core domain interface [polypeptide binding]; other site 1235461009774 delta subunit interface [polypeptide binding]; other site 1235461009775 epsilon subunit interface [polypeptide binding]; other site 1235461009776 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1235461009777 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1235461009778 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1235461009779 beta subunit interaction interface [polypeptide binding]; other site 1235461009780 Walker A motif; other site 1235461009781 ATP binding site [chemical binding]; other site 1235461009782 Walker B motif; other site 1235461009783 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1235461009784 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1235461009785 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1235461009786 primosome assembly protein PriA; Validated; Region: PRK05580 1235461009787 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461009788 ATP binding site [chemical binding]; other site 1235461009789 putative Mg++ binding site [ion binding]; other site 1235461009790 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1235461009791 nucleotide binding region [chemical binding]; other site 1235461009792 ATP-binding site [chemical binding]; other site 1235461009793 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1235461009794 active site 1235461009795 intersubunit interactions; other site 1235461009796 catalytic residue [active] 1235461009797 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461009798 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1235461009799 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461009800 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1235461009801 Predicted ATPase [General function prediction only]; Region: COG4637 1235461009802 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461009803 Walker A/P-loop; other site 1235461009804 ATP binding site [chemical binding]; other site 1235461009805 Putative hemolysin [General function prediction only]; Region: COG3176 1235461009806 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1235461009807 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1235461009808 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461009809 active site 1235461009810 DNA binding site [nucleotide binding] 1235461009811 Int/Topo IB signature motif; other site 1235461009812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 1235461009813 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1235461009814 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461009815 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461009816 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1235461009817 short chain dehydrogenase; Provisional; Region: PRK06123 1235461009818 classical (c) SDRs; Region: SDR_c; cd05233 1235461009819 NAD(P) binding site [chemical binding]; other site 1235461009820 active site 1235461009821 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461009822 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1235461009823 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1235461009824 E3 interaction surface; other site 1235461009825 lipoyl attachment site [posttranslational modification]; other site 1235461009826 e3 binding domain; Region: E3_binding; pfam02817 1235461009827 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1235461009828 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1235461009829 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1235461009830 TPP-binding site [chemical binding]; other site 1235461009831 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1235461009832 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1235461009833 CoA binding domain; Region: CoA_binding; smart00881 1235461009834 CoA-ligase; Region: Ligase_CoA; pfam00549 1235461009835 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1235461009836 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1235461009837 CoA-ligase; Region: Ligase_CoA; pfam00549 1235461009838 malate dehydrogenase; Reviewed; Region: PRK06223 1235461009839 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1235461009840 NAD(P) binding site [chemical binding]; other site 1235461009841 dimer interface [polypeptide binding]; other site 1235461009842 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1235461009843 substrate binding site [chemical binding]; other site 1235461009844 Predicted ATPase [General function prediction only]; Region: COG1485 1235461009845 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1235461009846 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461009847 non-specific DNA binding site [nucleotide binding]; other site 1235461009848 salt bridge; other site 1235461009849 sequence-specific DNA binding site [nucleotide binding]; other site 1235461009850 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 1235461009851 Protease inhibitor Inh; Region: Inh; pfam02974 1235461009852 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461009853 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461009854 Walker A/P-loop; other site 1235461009855 ATP binding site [chemical binding]; other site 1235461009856 Q-loop/lid; other site 1235461009857 ABC transporter signature motif; other site 1235461009858 Walker B; other site 1235461009859 D-loop; other site 1235461009860 H-loop/switch region; other site 1235461009861 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461009862 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009863 dimer interface [polypeptide binding]; other site 1235461009864 conserved gate region; other site 1235461009865 putative PBP binding loops; other site 1235461009866 ABC-ATPase subunit interface; other site 1235461009867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461009868 dimer interface [polypeptide binding]; other site 1235461009869 conserved gate region; other site 1235461009870 putative PBP binding loops; other site 1235461009871 ABC-ATPase subunit interface; other site 1235461009872 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461009873 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461009874 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1235461009875 putative Zn2+ binding site [ion binding]; other site 1235461009876 putative DNA binding site [nucleotide binding]; other site 1235461009877 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1235461009878 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461009879 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461009880 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461009881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3828 1235461009882 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1235461009883 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1235461009884 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1235461009885 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1235461009886 L-aspartate oxidase; Provisional; Region: PRK06175 1235461009887 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1235461009888 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 1235461009889 putative SdhC subunit interface [polypeptide binding]; other site 1235461009890 putative proximal heme binding site [chemical binding]; other site 1235461009891 putative Iron-sulfur protein interface [polypeptide binding]; other site 1235461009892 putative proximal quinone binding site; other site 1235461009893 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1235461009894 Iron-sulfur protein interface; other site 1235461009895 proximal quinone binding site [chemical binding]; other site 1235461009896 SdhD (CybS) interface [polypeptide binding]; other site 1235461009897 proximal heme binding site [chemical binding]; other site 1235461009898 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1235461009899 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1235461009900 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461009901 Predicted methyltransferase [General function prediction only]; Region: COG3897 1235461009902 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1235461009903 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1235461009904 YciI-like protein; Reviewed; Region: PRK12865 1235461009905 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1235461009906 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1235461009907 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1235461009908 UGMP family protein; Validated; Region: PRK09604 1235461009909 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1235461009910 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1235461009911 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1235461009912 domain interfaces; other site 1235461009913 active site 1235461009914 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1235461009915 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1235461009916 active site 1235461009917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1235461009918 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1235461009919 HemY protein N-terminus; Region: HemY_N; pfam07219 1235461009920 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1235461009921 putative metal binding site [ion binding]; other site 1235461009922 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1235461009923 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1235461009924 catalytic triad [active] 1235461009925 enterobactin exporter EntS; Provisional; Region: PRK10489 1235461009926 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461009927 putative substrate translocation pore; other site 1235461009928 YGGT family; Region: YGGT; pfam02325 1235461009929 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1235461009930 dimer interface [polypeptide binding]; other site 1235461009931 substrate binding site [chemical binding]; other site 1235461009932 metal binding sites [ion binding]; metal-binding site 1235461009933 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1235461009934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461009935 Coenzyme A binding pocket [chemical binding]; other site 1235461009936 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1235461009937 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1235461009938 G1 box; other site 1235461009939 putative GEF interaction site [polypeptide binding]; other site 1235461009940 GTP/Mg2+ binding site [chemical binding]; other site 1235461009941 Switch I region; other site 1235461009942 G2 box; other site 1235461009943 G3 box; other site 1235461009944 Switch II region; other site 1235461009945 G4 box; other site 1235461009946 G5 box; other site 1235461009947 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1235461009948 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1235461009949 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 1235461009950 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1235461009951 putative active site [active] 1235461009952 putative metal binding site [ion binding]; other site 1235461009953 KTSC domain; Region: KTSC; pfam13619 1235461009954 amidase; Provisional; Region: PRK07056 1235461009955 amidase; Validated; Region: PRK05962 1235461009956 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 1235461009957 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1235461009958 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1235461009959 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1235461009960 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1235461009961 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1235461009962 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1235461009963 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1235461009964 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1235461009965 GTP1/OBG; Region: GTP1_OBG; pfam01018 1235461009966 Obg GTPase; Region: Obg; cd01898 1235461009967 G1 box; other site 1235461009968 GTP/Mg2+ binding site [chemical binding]; other site 1235461009969 Switch I region; other site 1235461009970 G2 box; other site 1235461009971 G3 box; other site 1235461009972 Switch II region; other site 1235461009973 G4 box; other site 1235461009974 G5 box; other site 1235461009975 gamma-glutamyl kinase; Provisional; Region: PRK05429 1235461009976 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 1235461009977 nucleotide binding site [chemical binding]; other site 1235461009978 homotetrameric interface [polypeptide binding]; other site 1235461009979 putative phosphate binding site [ion binding]; other site 1235461009980 putative allosteric binding site; other site 1235461009981 PUA domain; Region: PUA; pfam01472 1235461009982 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1235461009983 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1235461009984 putative catalytic cysteine [active] 1235461009985 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1235461009986 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1235461009987 active site 1235461009988 (T/H)XGH motif; other site 1235461009989 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1235461009990 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1235461009991 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1235461009992 Peptidase family M23; Region: Peptidase_M23; pfam01551 1235461009993 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1235461009994 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1235461009995 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1235461009996 protein binding site [polypeptide binding]; other site 1235461009997 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1235461009998 Catalytic dyad [active] 1235461009999 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1235461010000 NodB motif; other site 1235461010001 putative active site [active] 1235461010002 putative catalytic site [active] 1235461010003 Zn binding site [ion binding]; other site 1235461010004 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1235461010005 putative active site [active] 1235461010006 Ap4A binding site [chemical binding]; other site 1235461010007 nudix motif; other site 1235461010008 putative metal binding site [ion binding]; other site 1235461010009 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1235461010010 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1235461010011 heme binding site [chemical binding]; other site 1235461010012 ferroxidase pore; other site 1235461010013 ferroxidase diiron center [ion binding]; other site 1235461010014 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1235461010015 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1235461010016 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1235461010017 putative active site [active] 1235461010018 putative PHP Thumb interface [polypeptide binding]; other site 1235461010019 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1235461010020 generic binding surface II; other site 1235461010021 generic binding surface I; other site 1235461010022 DNA Polymerase Y-family; Region: PolY_like; cd03468 1235461010023 active site 1235461010024 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1235461010025 DNA binding site [nucleotide binding] 1235461010026 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1235461010027 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1235461010028 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 1235461010029 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1235461010030 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1235461010031 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1235461010032 substrate binding site [chemical binding]; other site 1235461010033 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 1235461010034 homotrimer interaction site [polypeptide binding]; other site 1235461010035 putative active site [active] 1235461010036 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 1235461010037 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1235461010038 proposed active site lysine [active] 1235461010039 conserved cys residue [active] 1235461010040 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1235461010041 active site 1235461010042 catalytic residues [active] 1235461010043 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1235461010044 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1235461010045 P-loop, Walker A motif; other site 1235461010046 Base recognition motif; other site 1235461010047 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1235461010048 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1235461010049 putative deacylase active site [active] 1235461010050 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1235461010051 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1235461010052 catalytic residues [active] 1235461010053 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1235461010054 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1235461010055 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 1235461010056 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1235461010057 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1235461010058 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1235461010059 active site 1235461010060 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1235461010061 catalytic triad [active] 1235461010062 dimer interface [polypeptide binding]; other site 1235461010063 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1235461010064 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1235461010065 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1235461010066 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1235461010067 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1235461010068 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1235461010069 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1235461010070 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1235461010071 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1235461010072 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461010073 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461010074 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461010075 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461010076 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1235461010077 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461010078 ligand binding site [chemical binding]; other site 1235461010079 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461010080 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461010081 TM-ABC transporter signature motif; other site 1235461010082 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461010083 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461010084 Walker A/P-loop; other site 1235461010085 ATP binding site [chemical binding]; other site 1235461010086 Q-loop/lid; other site 1235461010087 ABC transporter signature motif; other site 1235461010088 Walker B; other site 1235461010089 D-loop; other site 1235461010090 H-loop/switch region; other site 1235461010091 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1235461010092 MarR family; Region: MarR_2; pfam12802 1235461010093 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1235461010094 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1235461010095 nucleotide binding site [chemical binding]; other site 1235461010096 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1235461010097 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1235461010098 nucleotide binding site [chemical binding]; other site 1235461010099 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1235461010100 putative catalytic site [active] 1235461010101 putative phosphate binding site [ion binding]; other site 1235461010102 active site 1235461010103 metal binding site A [ion binding]; metal-binding site 1235461010104 DNA binding site [nucleotide binding] 1235461010105 putative AP binding site [nucleotide binding]; other site 1235461010106 putative metal binding site B [ion binding]; other site 1235461010107 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461010108 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461010109 ligand binding site [chemical binding]; other site 1235461010110 flexible hinge region; other site 1235461010111 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461010112 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461010113 active site 1235461010114 phosphorylation site [posttranslational modification] 1235461010115 intermolecular recognition site; other site 1235461010116 dimerization interface [polypeptide binding]; other site 1235461010117 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461010118 DNA binding site [nucleotide binding] 1235461010119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1235461010120 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1235461010121 catalytic core [active] 1235461010122 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1235461010123 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1235461010124 substrate binding site [chemical binding]; other site 1235461010125 ligand binding site [chemical binding]; other site 1235461010126 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461010127 MarR family; Region: MarR_2; pfam12802 1235461010128 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461010129 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461010130 putative substrate translocation pore; other site 1235461010131 argininosuccinate synthase; Provisional; Region: PRK13820 1235461010132 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1235461010133 ANP binding site [chemical binding]; other site 1235461010134 Substrate Binding Site II [chemical binding]; other site 1235461010135 Substrate Binding Site I [chemical binding]; other site 1235461010136 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461010137 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1235461010138 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461010139 Walker A/P-loop; other site 1235461010140 ATP binding site [chemical binding]; other site 1235461010141 Q-loop/lid; other site 1235461010142 ABC transporter signature motif; other site 1235461010143 Walker B; other site 1235461010144 D-loop; other site 1235461010145 H-loop/switch region; other site 1235461010146 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461010147 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1235461010148 TM-ABC transporter signature motif; other site 1235461010149 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1235461010150 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461010151 zinc binding site [ion binding]; other site 1235461010152 putative ligand binding site [chemical binding]; other site 1235461010153 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1235461010154 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461010155 FeS/SAM binding site; other site 1235461010156 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1235461010157 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1235461010158 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1235461010159 aromatic arch; other site 1235461010160 DCoH dimer interaction site [polypeptide binding]; other site 1235461010161 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1235461010162 DCoH tetramer interaction site [polypeptide binding]; other site 1235461010163 substrate binding site [chemical binding]; other site 1235461010164 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1235461010165 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1235461010166 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1235461010167 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1235461010168 active site 1235461010169 catalytic triad [active] 1235461010170 oxyanion hole [active] 1235461010171 switch loop; other site 1235461010172 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1235461010173 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1235461010174 Walker A/P-loop; other site 1235461010175 ATP binding site [chemical binding]; other site 1235461010176 Q-loop/lid; other site 1235461010177 ABC transporter signature motif; other site 1235461010178 Walker B; other site 1235461010179 D-loop; other site 1235461010180 H-loop/switch region; other site 1235461010181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1235461010182 ybhL leader; C770_GR4Chr3309 1235461010183 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1235461010184 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1235461010185 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1235461010186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461010187 Coenzyme A binding pocket [chemical binding]; other site 1235461010188 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1235461010189 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1235461010190 oligomer interface [polypeptide binding]; other site 1235461010191 active site residues [active] 1235461010192 Uncharacterized conserved protein [Function unknown]; Region: COG3832 1235461010193 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461010194 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461010195 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461010196 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461010197 putative active site [active] 1235461010198 putative NTP binding site [chemical binding]; other site 1235461010199 putative nucleic acid binding site [nucleotide binding]; other site 1235461010200 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461010201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461010202 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461010203 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461010204 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461010205 putative DNA binding site [nucleotide binding]; other site 1235461010206 putative Zn2+ binding site [ion binding]; other site 1235461010207 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 1235461010208 Uncharacterized secreted protein [Function unknown]; Region: COG5429 1235461010209 aconitate hydratase; Validated; Region: PRK09277 1235461010210 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1235461010211 substrate binding site [chemical binding]; other site 1235461010212 ligand binding site [chemical binding]; other site 1235461010213 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1235461010214 substrate binding site [chemical binding]; other site 1235461010215 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1235461010216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461010217 Walker A/P-loop; other site 1235461010218 ATP binding site [chemical binding]; other site 1235461010219 Q-loop/lid; other site 1235461010220 ABC transporter signature motif; other site 1235461010221 Walker B; other site 1235461010222 D-loop; other site 1235461010223 H-loop/switch region; other site 1235461010224 heme exporter protein CcmB; Region: ccmB; TIGR01190 1235461010225 heme exporter protein CcmC; Region: ccmC; TIGR01191 1235461010226 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1235461010227 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1235461010228 catalytic residues [active] 1235461010229 central insert; other site 1235461010230 hypothetical protein; Provisional; Region: PRK00944 1235461010231 intracellular septation protein A; Reviewed; Region: PRK00259 1235461010232 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1235461010233 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1235461010234 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1235461010235 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1235461010236 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1235461010237 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461010238 FeS/SAM binding site; other site 1235461010239 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 1235461010240 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1235461010241 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1235461010242 signal recognition particle protein; Provisional; Region: PRK10867 1235461010243 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1235461010244 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1235461010245 P loop; other site 1235461010246 GTP binding site [chemical binding]; other site 1235461010247 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1235461010248 chorismate mutase; Provisional; Region: PRK09239 1235461010249 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 1235461010250 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1235461010251 RimM N-terminal domain; Region: RimM; pfam01782 1235461010252 PRC-barrel domain; Region: PRC; pfam05239 1235461010253 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1235461010254 hypothetical protein; Provisional; Region: PRK10621 1235461010255 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1235461010256 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1235461010257 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461010258 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461010259 substrate binding pocket [chemical binding]; other site 1235461010260 membrane-bound complex binding site; other site 1235461010261 hinge residues; other site 1235461010262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461010263 dimer interface [polypeptide binding]; other site 1235461010264 conserved gate region; other site 1235461010265 putative PBP binding loops; other site 1235461010266 ABC-ATPase subunit interface; other site 1235461010267 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1235461010268 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461010269 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461010270 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1235461010271 Thiamine pyrophosphokinase; Region: TPK; cd07995 1235461010272 active site 1235461010273 dimerization interface [polypeptide binding]; other site 1235461010274 thiamine binding site [chemical binding]; other site 1235461010275 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1235461010276 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1235461010277 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1235461010278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461010279 ABC-ATPase subunit interface; other site 1235461010280 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461010281 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1235461010282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461010283 Walker A/P-loop; other site 1235461010284 ATP binding site [chemical binding]; other site 1235461010285 Q-loop/lid; other site 1235461010286 ABC transporter signature motif; other site 1235461010287 Walker B; other site 1235461010288 D-loop; other site 1235461010289 H-loop/switch region; other site 1235461010290 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1235461010291 Peptidase family M48; Region: Peptidase_M48; pfam01435 1235461010292 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1235461010293 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 1235461010294 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461010295 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461010296 DNA binding residues [nucleotide binding] 1235461010297 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1235461010298 Ferredoxin [Energy production and conversion]; Region: COG1146 1235461010299 4Fe-4S binding domain; Region: Fer4; pfam00037 1235461010300 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1235461010301 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1235461010302 RNA binding surface [nucleotide binding]; other site 1235461010303 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461010304 ATP binding site [chemical binding]; other site 1235461010305 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1235461010306 putative Mg++ binding site [ion binding]; other site 1235461010307 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461010308 nucleotide binding region [chemical binding]; other site 1235461010309 ATP-binding site [chemical binding]; other site 1235461010310 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1235461010311 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1235461010312 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1235461010313 NAD(P) binding site [chemical binding]; other site 1235461010314 homotetramer interface [polypeptide binding]; other site 1235461010315 homodimer interface [polypeptide binding]; other site 1235461010316 active site 1235461010317 putative acyltransferase; Provisional; Region: PRK05790 1235461010318 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1235461010319 dimer interface [polypeptide binding]; other site 1235461010320 active site 1235461010321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1235461010322 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1235461010323 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1235461010324 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1235461010325 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1235461010326 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461010327 putative C-terminal domain interface [polypeptide binding]; other site 1235461010328 putative GSH binding site (G-site) [chemical binding]; other site 1235461010329 putative dimer interface [polypeptide binding]; other site 1235461010330 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1235461010331 putative dimer interface [polypeptide binding]; other site 1235461010332 putative N-terminal domain interface [polypeptide binding]; other site 1235461010333 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461010334 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1235461010335 Transglycosylase; Region: Transgly; cl17702 1235461010336 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1235461010337 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1235461010338 substrate binding pocket [chemical binding]; other site 1235461010339 chain length determination region; other site 1235461010340 substrate-Mg2+ binding site; other site 1235461010341 catalytic residues [active] 1235461010342 aspartate-rich region 1; other site 1235461010343 active site lid residues [active] 1235461010344 aspartate-rich region 2; other site 1235461010345 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1235461010346 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461010347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461010348 homodimer interface [polypeptide binding]; other site 1235461010349 catalytic residue [active] 1235461010350 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461010351 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1235461010352 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1235461010353 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1235461010354 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461010355 putative substrate translocation pore; other site 1235461010356 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1235461010357 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1235461010358 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1235461010359 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461010360 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461010361 substrate binding pocket [chemical binding]; other site 1235461010362 membrane-bound complex binding site; other site 1235461010363 hinge residues; other site 1235461010364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461010365 dimer interface [polypeptide binding]; other site 1235461010366 conserved gate region; other site 1235461010367 putative PBP binding loops; other site 1235461010368 ABC-ATPase subunit interface; other site 1235461010369 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461010370 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461010371 Walker A/P-loop; other site 1235461010372 ATP binding site [chemical binding]; other site 1235461010373 Q-loop/lid; other site 1235461010374 ABC transporter signature motif; other site 1235461010375 Walker B; other site 1235461010376 D-loop; other site 1235461010377 H-loop/switch region; other site 1235461010378 pyruvate carboxylase; Reviewed; Region: PRK12999 1235461010379 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1235461010380 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1235461010381 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1235461010382 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1235461010383 active site 1235461010384 catalytic residues [active] 1235461010385 metal binding site [ion binding]; metal-binding site 1235461010386 homodimer binding site [polypeptide binding]; other site 1235461010387 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1235461010388 carboxyltransferase (CT) interaction site; other site 1235461010389 biotinylation site [posttranslational modification]; other site 1235461010390 glucan exporter ATP-binding protein; Region: chvA; TIGR01192 1235461010391 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461010392 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1235461010393 Walker A/P-loop; other site 1235461010394 ATP binding site [chemical binding]; other site 1235461010395 Q-loop/lid; other site 1235461010396 ABC transporter signature motif; other site 1235461010397 Walker B; other site 1235461010398 D-loop; other site 1235461010399 H-loop/switch region; other site 1235461010400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 1235461010401 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1235461010402 Putative glucoamylase; Region: Glycoamylase; pfam10091 1235461010403 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1235461010404 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1235461010405 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1235461010406 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461010407 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461010408 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 1235461010409 dimerization interface [polypeptide binding]; other site 1235461010410 substrate binding pocket [chemical binding]; other site 1235461010411 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1235461010412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1235461010413 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1235461010414 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461010415 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1235461010416 aldehyde dehydrogenase family 7 member; Region: PLN02315 1235461010417 tetrameric interface [polypeptide binding]; other site 1235461010418 NAD binding site [chemical binding]; other site 1235461010419 catalytic residues [active] 1235461010420 aspartate aminotransferase; Provisional; Region: PRK05764 1235461010421 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461010422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461010423 homodimer interface [polypeptide binding]; other site 1235461010424 catalytic residue [active] 1235461010425 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461010426 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461010427 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461010428 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1235461010429 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461010430 non-specific DNA binding site [nucleotide binding]; other site 1235461010431 salt bridge; other site 1235461010432 sequence-specific DNA binding site [nucleotide binding]; other site 1235461010433 Cupin domain; Region: Cupin_2; pfam07883 1235461010434 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1235461010435 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461010436 inhibitor-cofactor binding pocket; inhibition site 1235461010437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461010438 catalytic residue [active] 1235461010439 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1235461010440 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1235461010441 MOFRL family; Region: MOFRL; pfam05161 1235461010442 choline dehydrogenase; Validated; Region: PRK02106 1235461010443 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1235461010444 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1235461010445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461010446 NAD(P) binding site [chemical binding]; other site 1235461010447 active site 1235461010448 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1235461010449 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1235461010450 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461010451 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461010452 Walker A/P-loop; other site 1235461010453 ATP binding site [chemical binding]; other site 1235461010454 Q-loop/lid; other site 1235461010455 ABC transporter signature motif; other site 1235461010456 Walker B; other site 1235461010457 D-loop; other site 1235461010458 H-loop/switch region; other site 1235461010459 TOBE domain; Region: TOBE; cl01440 1235461010460 TOBE domain; Region: TOBE_2; pfam08402 1235461010461 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461010462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461010463 dimer interface [polypeptide binding]; other site 1235461010464 conserved gate region; other site 1235461010465 putative PBP binding loops; other site 1235461010466 ABC-ATPase subunit interface; other site 1235461010467 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461010468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461010469 dimer interface [polypeptide binding]; other site 1235461010470 conserved gate region; other site 1235461010471 putative PBP binding loops; other site 1235461010472 ABC-ATPase subunit interface; other site 1235461010473 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461010474 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461010475 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461010476 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1235461010477 NAD(P) binding site [chemical binding]; other site 1235461010478 catalytic residues [active] 1235461010479 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1235461010480 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461010481 substrate binding site [chemical binding]; other site 1235461010482 oxyanion hole (OAH) forming residues; other site 1235461010483 trimer interface [polypeptide binding]; other site 1235461010484 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1235461010485 Coenzyme A transferase; Region: CoA_trans; smart00882 1235461010486 Coenzyme A transferase; Region: CoA_trans; cl17247 1235461010487 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461010488 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461010489 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461010490 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461010491 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461010492 DNA binding site [nucleotide binding] 1235461010493 domain linker motif; other site 1235461010494 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1235461010495 putative dimerization interface [polypeptide binding]; other site 1235461010496 putative ligand binding site [chemical binding]; other site 1235461010497 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1235461010498 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1235461010499 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1235461010500 active site 1235461010501 Zn binding site [ion binding]; other site 1235461010502 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461010503 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1235461010504 tartrate dehydrogenase; Region: TTC; TIGR02089 1235461010505 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1235461010506 active site 1235461010507 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461010508 putative substrate translocation pore; other site 1235461010509 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1235461010510 oligomeric interface; other site 1235461010511 putative active site [active] 1235461010512 homodimer interface [polypeptide binding]; other site 1235461010513 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1235461010514 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1235461010515 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1235461010516 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1235461010517 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461010518 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461010519 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1235461010520 active site clefts [active] 1235461010521 zinc binding site [ion binding]; other site 1235461010522 dimer interface [polypeptide binding]; other site 1235461010523 pyridoxamine kinase; Validated; Region: PRK05756 1235461010524 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1235461010525 pyridoxal binding site [chemical binding]; other site 1235461010526 dimer interface [polypeptide binding]; other site 1235461010527 ATP binding site [chemical binding]; other site 1235461010528 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1235461010529 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1235461010530 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461010531 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461010532 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461010533 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461010534 putative active site [active] 1235461010535 putative NTP binding site [chemical binding]; other site 1235461010536 putative nucleic acid binding site [nucleotide binding]; other site 1235461010537 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461010538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461010539 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461010540 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461010541 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1235461010542 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1235461010543 purine monophosphate binding site [chemical binding]; other site 1235461010544 dimer interface [polypeptide binding]; other site 1235461010545 putative catalytic residues [active] 1235461010546 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1235461010547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 1235461010548 NusB family; Region: NusB; pfam01029 1235461010549 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1235461010550 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461010551 S-adenosylmethionine binding site [chemical binding]; other site 1235461010552 heat shock protein HtpX; Provisional; Region: PRK01345 1235461010553 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1235461010554 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1235461010555 acetyl-CoA synthetase; Provisional; Region: PRK00174 1235461010556 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1235461010557 active site 1235461010558 CoA binding site [chemical binding]; other site 1235461010559 acyl-activating enzyme (AAE) consensus motif; other site 1235461010560 AMP binding site [chemical binding]; other site 1235461010561 acetate binding site [chemical binding]; other site 1235461010562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1235461010563 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1235461010564 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1235461010565 acyl-activating enzyme (AAE) consensus motif; other site 1235461010566 AMP binding site [chemical binding]; other site 1235461010567 active site 1235461010568 CoA binding site [chemical binding]; other site 1235461010569 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1235461010570 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1235461010571 catalytic residue [active] 1235461010572 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1235461010573 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1235461010574 HIGH motif; other site 1235461010575 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1235461010576 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1235461010577 active site 1235461010578 KMSKS motif; other site 1235461010579 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1235461010580 tRNA binding surface [nucleotide binding]; other site 1235461010581 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 1235461010582 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1235461010583 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1235461010584 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1235461010585 ParB-like nuclease domain; Region: ParBc; pfam02195 1235461010586 KorB domain; Region: KorB; pfam08535 1235461010587 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1235461010588 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461010589 P-loop; other site 1235461010590 Magnesium ion binding site [ion binding]; other site 1235461010591 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461010592 Magnesium ion binding site [ion binding]; other site 1235461010593 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1235461010594 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1235461010595 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1235461010596 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1235461010597 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1235461010598 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1235461010599 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1235461010600 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1235461010601 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1235461010602 G1 box; other site 1235461010603 GTP/Mg2+ binding site [chemical binding]; other site 1235461010604 Switch I region; other site 1235461010605 G2 box; other site 1235461010606 Switch II region; other site 1235461010607 G3 box; other site 1235461010608 G4 box; other site 1235461010609 G5 box; other site 1235461010610 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1235461010611 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1235461010612 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1235461010613 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1235461010614 RNA binding site [nucleotide binding]; other site 1235461010615 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1235461010616 multimer interface [polypeptide binding]; other site 1235461010617 Walker A motif; other site 1235461010618 ATP binding site [chemical binding]; other site 1235461010619 Walker B motif; other site 1235461010620 Predicted membrane protein [Function unknown]; Region: COG1981 1235461010621 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1235461010622 substrate binding site [chemical binding]; other site 1235461010623 active site 1235461010624 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1235461010625 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461010626 P-loop; other site 1235461010627 Magnesium ion binding site [ion binding]; other site 1235461010628 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461010629 Magnesium ion binding site [ion binding]; other site 1235461010630 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1235461010631 ParB-like nuclease domain; Region: ParBc; pfam02195 1235461010632 replication initiation protein RepC; Provisional; Region: PRK13824 1235461010633 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1235461010634 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1235461010635 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461010636 active site 1235461010637 DNA binding site [nucleotide binding] 1235461010638 Int/Topo IB signature motif; other site 1235461010639 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1235461010640 PemK-like protein; Region: PemK; cl00995 1235461010641 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 1235461010642 HTH DNA binding domain; Region: HTH_13; pfam11972 1235461010643 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1235461010644 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 1235461010645 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1235461010646 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 1235461010647 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461010648 FeS/SAM binding site; other site 1235461010649 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1235461010650 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1235461010651 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461010652 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1235461010653 FeS/SAM binding site; other site 1235461010654 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1235461010655 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1235461010656 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1235461010657 catalytic residue [active] 1235461010658 CAAX protease self-immunity; Region: Abi; pfam02517 1235461010659 AIPR protein; Region: AIPR; pfam10592 1235461010660 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 1235461010661 Z1 domain; Region: Z1; pfam10593 1235461010662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461010663 ATP binding site [chemical binding]; other site 1235461010664 Mg2+ binding site [ion binding]; other site 1235461010665 G-X-G motif; other site 1235461010666 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1235461010667 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1235461010668 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1235461010669 cofactor binding site; other site 1235461010670 DNA binding site [nucleotide binding] 1235461010671 substrate interaction site [chemical binding]; other site 1235461010672 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1235461010673 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1235461010674 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1235461010675 additional DNA contacts [nucleotide binding]; other site 1235461010676 mismatch recognition site; other site 1235461010677 active site 1235461010678 zinc binding site [ion binding]; other site 1235461010679 DNA intercalation site [nucleotide binding]; other site 1235461010680 Superfamily II helicase [General function prediction only]; Region: COG1204 1235461010681 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1235461010682 ATP binding site [chemical binding]; other site 1235461010683 putative Mg++ binding site [ion binding]; other site 1235461010684 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1235461010685 R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich...; Region: R3H; cl00297 1235461010686 RxxxH motif; other site 1235461010687 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461010688 cyclase homology domain; Region: CHD; cd07302 1235461010689 nucleotidyl binding site; other site 1235461010690 metal binding site [ion binding]; metal-binding site 1235461010691 dimer interface [polypeptide binding]; other site 1235461010692 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461010693 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461010694 TPR motif; other site 1235461010695 binding surface 1235461010696 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461010697 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461010698 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1235461010699 catalytic site [active] 1235461010700 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 1235461010701 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1235461010702 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 1235461010703 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 1235461010704 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461010705 ligand binding site [chemical binding]; other site 1235461010706 dimerization interface [polypeptide binding]; other site 1235461010707 zinc binding site [ion binding]; other site 1235461010708 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461010709 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461010710 Walker A/P-loop; other site 1235461010711 ATP binding site [chemical binding]; other site 1235461010712 Q-loop/lid; other site 1235461010713 ABC transporter signature motif; other site 1235461010714 Walker B; other site 1235461010715 D-loop; other site 1235461010716 H-loop/switch region; other site 1235461010717 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461010718 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461010719 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461010720 TM-ABC transporter signature motif; other site 1235461010721 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 1235461010722 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461010723 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1235461010724 putative active site [active] 1235461010725 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1235461010726 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461010727 substrate binding site [chemical binding]; other site 1235461010728 ATP binding site [chemical binding]; other site 1235461010729 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1235461010730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461010731 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1235461010732 putative dimerization interface [polypeptide binding]; other site 1235461010733 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461010734 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461010735 substrate binding pocket [chemical binding]; other site 1235461010736 membrane-bound complex binding site; other site 1235461010737 hinge residues; other site 1235461010738 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461010739 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461010740 dimer interface [polypeptide binding]; other site 1235461010741 conserved gate region; other site 1235461010742 putative PBP binding loops; other site 1235461010743 ABC-ATPase subunit interface; other site 1235461010744 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461010745 dimer interface [polypeptide binding]; other site 1235461010746 conserved gate region; other site 1235461010747 putative PBP binding loops; other site 1235461010748 ABC-ATPase subunit interface; other site 1235461010749 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461010750 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1235461010751 Walker A/P-loop; other site 1235461010752 ATP binding site [chemical binding]; other site 1235461010753 Q-loop/lid; other site 1235461010754 ABC transporter signature motif; other site 1235461010755 Walker B; other site 1235461010756 D-loop; other site 1235461010757 H-loop/switch region; other site 1235461010758 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1235461010759 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1235461010760 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1235461010761 putative ligand binding site [chemical binding]; other site 1235461010762 NAD binding site [chemical binding]; other site 1235461010763 catalytic site [active] 1235461010764 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 1235461010765 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 1235461010766 putative NAD(P) binding site [chemical binding]; other site 1235461010767 catalytic Zn binding site [ion binding]; other site 1235461010768 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 1235461010769 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1235461010770 NADP binding site [chemical binding]; other site 1235461010771 homodimer interface [polypeptide binding]; other site 1235461010772 active site 1235461010773 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1235461010774 ATP-binding site [chemical binding]; other site 1235461010775 Gluconate-6-phosphate binding site [chemical binding]; other site 1235461010776 Sterile alpha motif; Region: SAM; smart00454 1235461010777 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 1235461010778 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461010779 cyclase homology domain; Region: CHD; cd07302 1235461010780 nucleotidyl binding site; other site 1235461010781 metal binding site [ion binding]; metal-binding site 1235461010782 dimer interface [polypeptide binding]; other site 1235461010783 AAA ATPase domain; Region: AAA_16; pfam13191 1235461010784 Predicted ATPase [General function prediction only]; Region: COG3903 1235461010785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461010786 active site 1235461010787 phosphorylation site [posttranslational modification] 1235461010788 intermolecular recognition site; other site 1235461010789 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1235461010790 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1235461010791 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1235461010792 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1235461010793 Divalent cation transporter; Region: MgtE; pfam01769 1235461010794 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461010795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461010796 active site 1235461010797 phosphorylation site [posttranslational modification] 1235461010798 intermolecular recognition site; other site 1235461010799 dimerization interface [polypeptide binding]; other site 1235461010800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1235461010801 HWE histidine kinase; Region: HWE_HK; pfam07536 1235461010802 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 1235461010803 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1235461010804 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1235461010805 Walker A motif; other site 1235461010806 Walker A motif; other site 1235461010807 ATP binding site [chemical binding]; other site 1235461010808 Walker B motif; other site 1235461010809 KaiC; Region: KaiC; pfam06745 1235461010810 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 1235461010811 Walker A motif; other site 1235461010812 ATP binding site [chemical binding]; other site 1235461010813 Walker B motif; other site 1235461010814 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1235461010815 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 1235461010816 nudix motif; other site 1235461010817 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 1235461010818 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461010819 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461010820 non-specific DNA binding site [nucleotide binding]; other site 1235461010821 salt bridge; other site 1235461010822 sequence-specific DNA binding site [nucleotide binding]; other site 1235461010823 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1235461010824 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461010825 P-loop; other site 1235461010826 Magnesium ion binding site [ion binding]; other site 1235461010827 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1235461010828 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 1235461010829 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461010830 catalytic site [active] 1235461010831 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1235461010832 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1235461010833 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1235461010834 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 1235461010835 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461010836 cyclase homology domain; Region: CHD; cd07302 1235461010837 nucleotidyl binding site; other site 1235461010838 metal binding site [ion binding]; metal-binding site 1235461010839 dimer interface [polypeptide binding]; other site 1235461010840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461010841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461010842 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461010843 putative effector binding pocket; other site 1235461010844 putative dimerization interface [polypeptide binding]; other site 1235461010845 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461010846 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461010847 active site 1235461010848 catalytic tetrad [active] 1235461010849 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461010850 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461010851 active site 1235461010852 catalytic tetrad [active] 1235461010853 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461010854 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461010855 active site 1235461010856 catalytic tetrad [active] 1235461010857 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1235461010858 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1235461010859 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1235461010860 Walker A motif; other site 1235461010861 ATP binding site [chemical binding]; other site 1235461010862 Walker B motif; other site 1235461010863 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1235461010864 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1235461010865 Walker A motif; other site 1235461010866 hexamer interface [polypeptide binding]; other site 1235461010867 ATP binding site [chemical binding]; other site 1235461010868 Walker B motif; other site 1235461010869 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1235461010870 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1235461010871 VirB7 interaction site; other site 1235461010872 VirB8 protein; Region: VirB8; pfam04335 1235461010873 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1235461010874 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1235461010875 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461010876 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461010877 catalytic residue [active] 1235461010878 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1235461010879 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1235461010880 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1235461010881 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1235461010882 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1235461010883 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1235461010884 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1235461010885 catalytic residue [active] 1235461010886 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1235461010887 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1235461010888 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1235461010889 Staphylococcal nuclease homologues; Region: SNc; smart00318 1235461010890 Catalytic site; other site 1235461010891 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1235461010892 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461010893 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1235461010894 B3/4 domain; Region: B3_4; pfam03483 1235461010895 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1235461010896 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1235461010897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461010898 DNA-binding site [nucleotide binding]; DNA binding site 1235461010899 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461010900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461010901 homodimer interface [polypeptide binding]; other site 1235461010902 catalytic residue [active] 1235461010903 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461010904 DNA-binding site [nucleotide binding]; DNA binding site 1235461010905 RNA-binding motif; other site 1235461010906 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1235461010907 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 1235461010908 inosine-5'-monophosphate dehydrogenase; Region: IMP_dehydrog; TIGR01302 1235461010909 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461010910 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461010911 non-specific DNA binding site [nucleotide binding]; other site 1235461010912 salt bridge; other site 1235461010913 sequence-specific DNA binding site [nucleotide binding]; other site 1235461010914 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 1235461010915 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461010916 MULE transposase domain; Region: MULE; pfam10551 1235461010917 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461010918 Domain of unknown function (DUF305); Region: DUF305; cl17794 1235461010919 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1235461010920 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1235461010921 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1235461010922 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1235461010923 catalytic residues [active] 1235461010924 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1235461010925 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1235461010926 Cu(I) binding site [ion binding]; other site 1235461010927 Protein of unknown function, DUF; Region: DUF411; cl01142 1235461010928 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1235461010929 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1235461010930 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1235461010931 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1235461010932 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1235461010933 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1235461010934 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461010935 YtkA-like; Region: YtkA; pfam13115 1235461010936 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461010937 metal-binding site [ion binding] 1235461010938 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461010939 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461010940 ligand binding site [chemical binding]; other site 1235461010941 flexible hinge region; other site 1235461010942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461010943 Walker A/P-loop; other site 1235461010944 ATP binding site [chemical binding]; other site 1235461010945 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461010946 Walker B; other site 1235461010947 D-loop; other site 1235461010948 H-loop/switch region; other site 1235461010949 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1235461010950 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461010951 metal-binding site [ion binding] 1235461010952 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1235461010953 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461010954 metal-binding site [ion binding] 1235461010955 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461010956 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461010957 motif II; other site 1235461010958 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1235461010959 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1235461010960 DNA binding residues [nucleotide binding] 1235461010961 dimer interface [polypeptide binding]; other site 1235461010962 copper binding site [ion binding]; other site 1235461010963 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461010964 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461010965 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1235461010966 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1235461010967 Cytochrome C' Region: Cytochrom_C_2; cl01610 1235461010968 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1235461010969 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461010970 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1235461010971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 1235461010972 Predicted membrane protein [Function unknown]; Region: COG1238 1235461010973 Outer membrane efflux protein; Region: OEP; pfam02321 1235461010974 Outer membrane efflux protein; Region: OEP; pfam02321 1235461010975 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1235461010976 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1235461010977 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1235461010978 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1235461010979 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 1235461010980 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461010981 cyclase homology domain; Region: CHD; cd07302 1235461010982 nucleotidyl binding site; other site 1235461010983 metal binding site [ion binding]; metal-binding site 1235461010984 dimer interface [polypeptide binding]; other site 1235461010985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461010986 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461010987 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1235461010988 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1235461010989 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1235461010990 [2Fe-2S] cluster binding site [ion binding]; other site 1235461010991 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1235461010992 ParB-like nuclease domain; Region: ParB; smart00470 1235461010993 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1235461010994 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1235461010995 Staphylococcal nuclease homologues; Region: SNc; smart00318 1235461010996 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1235461010997 Catalytic site; other site 1235461010998 Protein of unknown function (DUF736); Region: DUF736; pfam05284 1235461010999 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1235461011000 Fic/DOC family; Region: Fic; cl00960 1235461011001 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1235461011002 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1235461011003 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1235461011004 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461011005 P-loop; other site 1235461011006 Magnesium ion binding site [ion binding]; other site 1235461011007 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461011008 Magnesium ion binding site [ion binding]; other site 1235461011009 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1235461011010 ParB-like nuclease domain; Region: ParB; smart00470 1235461011011 S-element; C770_GR4pB004 1235461011012 replication initiation protein RepC; Provisional; Region: PRK13824 1235461011013 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1235461011014 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1235461011015 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1235461011016 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1235461011017 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461011018 active site 1235461011019 DNA binding site [nucleotide binding] 1235461011020 Int/Topo IB signature motif; other site 1235461011021 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1235461011022 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461011023 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461011024 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 1235461011025 putative active site [active] 1235461011026 putative NTP binding site [chemical binding]; other site 1235461011027 putative nucleic acid binding site [nucleotide binding]; other site 1235461011028 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1235461011029 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1235461011030 putative active site [active] 1235461011031 putative metal-binding site [ion binding]; other site 1235461011032 DDE superfamily endonuclease; Region: DDE_5; cl17874 1235461011033 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1235461011034 Cytochrome P450; Region: p450; cl12078 1235461011035 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1235461011036 Cytochrome P450; Region: p450; cl12078 1235461011037 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1235461011038 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1235461011039 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1235461011040 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 1235461011041 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1235461011042 Integrase core domain; Region: rve; pfam00665 1235461011043 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1235461011044 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1235461011045 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461011046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461011047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461011048 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461011049 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461011050 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1235461011051 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1235461011052 oligomer interface [polypeptide binding]; other site 1235461011053 metal binding site [ion binding]; metal-binding site 1235461011054 metal binding site [ion binding]; metal-binding site 1235461011055 putative Cl binding site [ion binding]; other site 1235461011056 Predicted transcriptional regulator [Transcription]; Region: COG4957 1235461011057 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461011058 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461011059 DNA binding residues [nucleotide binding] 1235461011060 dimerization interface [polypeptide binding]; other site 1235461011061 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1235461011062 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1235461011063 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1235461011064 active site 1235461011065 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1235461011066 LabA_like proteins; Region: LabA; cd10911 1235461011067 putative metal binding site [ion binding]; other site 1235461011068 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1235461011069 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461011070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461011071 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461011072 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461011073 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461011074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461011075 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461011076 Transposase; Region: HTH_Tnp_1; pfam01527 1235461011077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461011078 PAS fold; Region: PAS_7; pfam12860 1235461011079 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461011080 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461011081 metal binding site [ion binding]; metal-binding site 1235461011082 active site 1235461011083 I-site; other site 1235461011084 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461011085 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461011086 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461011087 MULE transposase domain; Region: MULE; pfam10551 1235461011088 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461011089 PAS domain; Region: PAS_9; pfam13426 1235461011090 putative active site [active] 1235461011091 heme pocket [chemical binding]; other site 1235461011092 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 1235461011093 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1235461011094 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461011095 Walker A motif; other site 1235461011096 ATP binding site [chemical binding]; other site 1235461011097 Walker B motif; other site 1235461011098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1235461011099 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461011100 Integrase core domain; Region: rve; pfam00665 1235461011101 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1235461011102 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1235461011103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461011104 catalytic residue [active] 1235461011105 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1235461011106 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461011107 putative DNA binding site [nucleotide binding]; other site 1235461011108 putative Zn2+ binding site [ion binding]; other site 1235461011109 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461011110 Thiamine monophosphate synthase/TENI; Region: TMP-TENI; cl17228 1235461011111 putative transposase OrfB; Reviewed; Region: PHA02517 1235461011112 HTH-like domain; Region: HTH_21; pfam13276 1235461011113 Integrase core domain; Region: rve; pfam00665 1235461011114 Integrase core domain; Region: rve_3; pfam13683 1235461011115 Transposase; Region: HTH_Tnp_1; pfam01527 1235461011116 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1235461011117 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1235461011118 thiS-thiF/thiG interaction site; other site 1235461011119 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1235461011120 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1235461011121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461011122 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 1235461011123 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1235461011124 Cytochrome P450; Region: p450; cl12078 1235461011125 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1235461011126 catalytic residues [active] 1235461011127 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461011128 MULE transposase domain; Region: MULE; pfam10551 1235461011129 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461011130 formate dehydrogenase; Provisional; Region: PRK07574 1235461011131 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 1235461011132 dimerization interface [polypeptide binding]; other site 1235461011133 ligand binding site [chemical binding]; other site 1235461011134 NAD binding site [chemical binding]; other site 1235461011135 catalytic site [active] 1235461011136 Cupin domain; Region: Cupin_2; cl17218 1235461011137 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1235461011138 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1235461011139 active site 1235461011140 zinc binding site [ion binding]; other site 1235461011141 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461011142 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461011143 metal binding site [ion binding]; metal-binding site 1235461011144 active site 1235461011145 I-site; other site 1235461011146 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461011147 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461011148 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461011149 non-specific DNA binding site [nucleotide binding]; other site 1235461011150 salt bridge; other site 1235461011151 sequence-specific DNA binding site [nucleotide binding]; other site 1235461011152 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1235461011153 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1235461011154 ring oligomerisation interface [polypeptide binding]; other site 1235461011155 ATP/Mg binding site [chemical binding]; other site 1235461011156 stacking interactions; other site 1235461011157 hinge regions; other site 1235461011158 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1235461011159 oligomerisation interface [polypeptide binding]; other site 1235461011160 mobile loop; other site 1235461011161 roof hairpin; other site 1235461011162 acyl carrier protein; Provisional; Region: acpP; PRK00982 1235461011163 Coenzyme A binding pocket [chemical binding]; other site 1235461011164 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1235461011165 Uncharacterized conserved protein [Function unknown]; Region: COG5556 1235461011166 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461011167 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461011168 non-specific DNA binding site [nucleotide binding]; other site 1235461011169 salt bridge; other site 1235461011170 sequence-specific DNA binding site [nucleotide binding]; other site 1235461011171 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1235461011172 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461011173 Protein export membrane protein; Region: SecD_SecF; cl14618 1235461011174 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461011175 DNA-binding site [nucleotide binding]; DNA binding site 1235461011176 RNA-binding motif; other site 1235461011177 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 1235461011178 nudix motif; other site 1235461011179 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1235461011180 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1235461011181 Omptin family; Region: Omptin; cl01886 1235461011182 Omptin family; Region: Omptin; cl01886 1235461011183 Predicted transcriptional regulator [Transcription]; Region: COG4957 1235461011184 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1235461011185 Cytochrome P450; Region: p450; cl12078 1235461011186 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461011187 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461011188 S-adenosylmethionine binding site [chemical binding]; other site 1235461011189 thioredoxin reductase; Provisional; Region: PRK10262 1235461011190 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1235461011191 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461011192 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461011193 dimerization interface [polypeptide binding]; other site 1235461011194 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1235461011195 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1235461011196 [2Fe-2S] cluster binding site [ion binding]; other site 1235461011197 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1235461011198 putative alpha subunit interface [polypeptide binding]; other site 1235461011199 putative active site [active] 1235461011200 putative substrate binding site [chemical binding]; other site 1235461011201 Fe binding site [ion binding]; other site 1235461011202 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1235461011203 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1235461011204 FAD binding pocket [chemical binding]; other site 1235461011205 FAD binding motif [chemical binding]; other site 1235461011206 phosphate binding motif [ion binding]; other site 1235461011207 beta-alpha-beta structure motif; other site 1235461011208 NAD binding pocket [chemical binding]; other site 1235461011209 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461011210 catalytic loop [active] 1235461011211 iron binding site [ion binding]; other site 1235461011212 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1235461011213 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1235461011214 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 1235461011215 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461011216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461011217 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461011218 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461011219 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461011220 non-specific DNA binding site [nucleotide binding]; other site 1235461011221 salt bridge; other site 1235461011222 sequence-specific DNA binding site [nucleotide binding]; other site 1235461011223 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1235461011224 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461011225 sequence-specific DNA binding site [nucleotide binding]; other site 1235461011226 salt bridge; other site 1235461011227 ParA-like protein; Provisional; Region: PHA02518 1235461011228 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461011229 P-loop; other site 1235461011230 Magnesium ion binding site [ion binding]; other site 1235461011231 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1235461011232 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1235461011233 B3/4 domain; Region: B3_4; pfam03483 1235461011234 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1235461011235 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1235461011236 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461011237 DNA-binding site [nucleotide binding]; DNA binding site 1235461011238 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461011239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461011240 homodimer interface [polypeptide binding]; other site 1235461011241 catalytic residue [active] 1235461011242 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461011243 DNA-binding site [nucleotide binding]; DNA binding site 1235461011244 RNA-binding motif; other site 1235461011245 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461011246 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1235461011247 catalytic site [active] 1235461011248 Integrase core domain; Region: rve; pfam00665 1235461011249 transposase; Validated; Region: PRK08181 1235461011250 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461011251 Walker A motif; other site 1235461011252 ATP binding site [chemical binding]; other site 1235461011253 Walker B motif; other site 1235461011254 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1235461011255 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461011256 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1235461011257 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1235461011258 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461011259 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461011260 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461011261 substrate binding pocket [chemical binding]; other site 1235461011262 membrane-bound complex binding site; other site 1235461011263 hinge residues; other site 1235461011264 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461011265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461011266 dimer interface [polypeptide binding]; other site 1235461011267 conserved gate region; other site 1235461011268 putative PBP binding loops; other site 1235461011269 ABC-ATPase subunit interface; other site 1235461011270 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461011271 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1235461011272 Walker A/P-loop; other site 1235461011273 ATP binding site [chemical binding]; other site 1235461011274 Q-loop/lid; other site 1235461011275 ABC transporter signature motif; other site 1235461011276 Walker B; other site 1235461011277 D-loop; other site 1235461011278 H-loop/switch region; other site 1235461011279 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461011280 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1235461011281 tetramerization interface [polypeptide binding]; other site 1235461011282 NAD(P) binding site [chemical binding]; other site 1235461011283 catalytic residues [active] 1235461011284 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1235461011285 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461011286 DNA-binding site [nucleotide binding]; DNA binding site 1235461011287 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461011288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461011289 homodimer interface [polypeptide binding]; other site 1235461011290 catalytic residue [active] 1235461011291 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1235461011292 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1235461011293 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1235461011294 Walker A/P-loop; other site 1235461011295 ATP binding site [chemical binding]; other site 1235461011296 Q-loop/lid; other site 1235461011297 ABC transporter signature motif; other site 1235461011298 Walker B; other site 1235461011299 D-loop; other site 1235461011300 H-loop/switch region; other site 1235461011301 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461011302 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1235461011303 Walker A/P-loop; other site 1235461011304 ATP binding site [chemical binding]; other site 1235461011305 Q-loop/lid; other site 1235461011306 ABC transporter signature motif; other site 1235461011307 Walker B; other site 1235461011308 D-loop; other site 1235461011309 H-loop/switch region; other site 1235461011310 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1235461011311 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1235461011312 TM-ABC transporter signature motif; other site 1235461011313 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461011314 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1235461011315 TM-ABC transporter signature motif; other site 1235461011316 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1235461011317 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1235461011318 ligand binding site [chemical binding]; other site 1235461011319 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461011320 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1235461011321 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 1235461011322 active site 1235461011323 ALIL pseudoknot; C770_GR4pB176 1235461011324 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461011325 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1235461011326 inhibitor site; inhibition site 1235461011327 active site 1235461011328 dimer interface [polypeptide binding]; other site 1235461011329 catalytic residue [active] 1235461011330 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1235461011331 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1235461011332 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1235461011333 Transposase; Region: HTH_Tnp_1; pfam01527 1235461011334 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1235461011335 HTH-like domain; Region: HTH_21; pfam13276 1235461011336 Integrase core domain; Region: rve; pfam00665 1235461011337 Integrase core domain; Region: rve_3; pfam13683 1235461011338 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461011339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461011340 DNA-binding site [nucleotide binding]; DNA binding site 1235461011341 FCD domain; Region: FCD; pfam07729 1235461011342 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1235461011343 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1235461011344 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 1235461011345 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1235461011346 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461011347 MULE transposase domain; Region: MULE; pfam10551 1235461011348 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461011349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461011350 DNA-binding site [nucleotide binding]; DNA binding site 1235461011351 FCD domain; Region: FCD; pfam07729 1235461011352 Integrase core domain; Region: rve; pfam00665 1235461011353 transposase; Validated; Region: PRK08181 1235461011354 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461011355 Walker A motif; other site 1235461011356 ATP binding site [chemical binding]; other site 1235461011357 Walker B motif; other site 1235461011358 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1235461011359 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461011360 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1235461011361 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1235461011362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461011363 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461011364 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461011365 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461011366 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461011367 putative active site [active] 1235461011368 putative NTP binding site [chemical binding]; other site 1235461011369 putative nucleic acid binding site [nucleotide binding]; other site 1235461011370 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461011371 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461011372 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461011373 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1235461011374 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1235461011375 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1235461011376 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 1235461011377 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1235461011378 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1235461011379 Walker A motif; other site 1235461011380 ATP binding site [chemical binding]; other site 1235461011381 Walker B motif; other site 1235461011382 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1235461011383 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1235461011384 type III secretion system protein YscR; Provisional; Region: PRK12797 1235461011385 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 1235461011386 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1235461011387 Transposase; Region: HTH_Tnp_1; cl17663 1235461011388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461011389 Transposase; Region: HTH_Tnp_1; pfam01527 1235461011390 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461011391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461011392 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461011393 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461011394 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461011395 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461011396 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461011397 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1235461011398 Transposase; Region: HTH_Tnp_1; cl17663 1235461011399 HTH-like domain; Region: HTH_21; pfam13276 1235461011400 Integrase core domain; Region: rve; pfam00665 1235461011401 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1235461011402 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1235461011403 catalytic residues [active] 1235461011404 catalytic nucleophile [active] 1235461011405 Recombinase; Region: Recombinase; pfam07508 1235461011406 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1235461011407 Transcription elongation factor Spt4; Region: Spt4; cl12033 1235461011408 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1235461011409 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1235461011410 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461011411 Walker A motif; other site 1235461011412 ATP binding site [chemical binding]; other site 1235461011413 Walker B motif; other site 1235461011414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1235461011415 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461011416 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461011417 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1235461011418 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1235461011419 catalytic residues [active] 1235461011420 catalytic nucleophile [active] 1235461011421 Recombinase; Region: Recombinase; pfam07508 1235461011422 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1235461011423 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1235461011424 DNA binding residues [nucleotide binding] 1235461011425 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1235461011426 Integrase core domain; Region: rve; pfam00665 1235461011427 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461011428 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461011429 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461011430 Transposase; Region: HTH_Tnp_1; pfam01527 1235461011431 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461011432 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461011433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461011434 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461011435 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461011436 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1235461011437 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1235461011438 Presynaptic Site I dimer interface [polypeptide binding]; other site 1235461011439 catalytic residues [active] 1235461011440 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1235461011441 Synaptic Flat tetramer interface [polypeptide binding]; other site 1235461011442 Synaptic Site I dimer interface [polypeptide binding]; other site 1235461011443 DNA binding site [nucleotide binding] 1235461011444 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1235461011445 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461011446 S-adenosylmethionine binding site [chemical binding]; other site 1235461011447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1235461011448 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1235461011449 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1235461011450 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1235461011451 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1235461011452 catalytic residues [active] 1235461011453 catalytic nucleophile [active] 1235461011454 Recombinase; Region: Recombinase; pfam07508 1235461011455 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1235461011456 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461011457 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1235461011458 FHIPEP family; Region: FHIPEP; pfam00771 1235461011459 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1235461011460 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1235461011461 Transposase; Region: HTH_Tnp_1; pfam01527 1235461011462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461011463 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461011464 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461011465 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461011466 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461011467 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461011468 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461011469 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461011470 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1235461011471 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1235461011472 calcium/proton exchanger; Region: caca2; TIGR00846 1235461011473 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1235461011474 Predicted transcriptional regulator [Transcription]; Region: COG3905 1235461011475 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1235461011476 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1235461011477 Staphylococcal nuclease homologues; Region: SNc; smart00318 1235461011478 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1235461011479 Catalytic site; other site 1235461011480 Protein of unknown function (DUF736); Region: DUF736; pfam05284 1235461011481 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1235461011482 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1235461011483 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1235461011484 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 1235461011485 Putative transposase; Region: Y2_Tnp; pfam04986 1235461011486 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1235461011487 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1235461011488 Int/Topo IB signature motif; other site 1235461011489 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1235461011490 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 1235461011491 Int/Topo IB signature motif; other site 1235461011492 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1235461011493 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461011494 active site 1235461011495 DNA binding site [nucleotide binding] 1235461011496 Int/Topo IB signature motif; other site 1235461011497 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1235461011498 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 1235461011499 Int/Topo IB signature motif; other site 1235461011500 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1235461011501 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1235461011502 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461011503 P-loop; other site 1235461011504 Magnesium ion binding site [ion binding]; other site 1235461011505 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461011506 Magnesium ion binding site [ion binding]; other site 1235461011507 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1235461011508 ParB-like nuclease domain; Region: ParB; smart00470 1235461011509 S-element; C770_GR4pC0004 1235461011510 replication initiation protein RepC; Provisional; Region: PRK13824 1235461011511 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1235461011512 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1235461011513 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1235461011514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461011515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461011516 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1235461011517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461011518 Walker A/P-loop; other site 1235461011519 ATP binding site [chemical binding]; other site 1235461011520 Q-loop/lid; other site 1235461011521 ABC transporter signature motif; other site 1235461011522 Walker B; other site 1235461011523 D-loop; other site 1235461011524 H-loop/switch region; other site 1235461011525 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461011526 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461011527 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1235461011528 NADP binding site [chemical binding]; other site 1235461011529 dimer interface [polypeptide binding]; other site 1235461011530 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461011531 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461011532 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1235461011533 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1235461011534 dimer interface [polypeptide binding]; other site 1235461011535 active site 1235461011536 heme binding site [chemical binding]; other site 1235461011537 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1235461011538 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461011539 putative substrate translocation pore; other site 1235461011540 Transcriptional activator [Transcription]; Region: ChrR; COG3806 1235461011541 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1235461011542 cytosine deaminase; Validated; Region: PRK07572 1235461011543 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1235461011544 active site 1235461011545 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461011546 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461011547 TM-ABC transporter signature motif; other site 1235461011548 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461011549 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461011550 TM-ABC transporter signature motif; other site 1235461011551 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1235461011552 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461011553 Walker A/P-loop; other site 1235461011554 ATP binding site [chemical binding]; other site 1235461011555 Q-loop/lid; other site 1235461011556 ABC transporter signature motif; other site 1235461011557 Walker B; other site 1235461011558 D-loop; other site 1235461011559 H-loop/switch region; other site 1235461011560 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461011561 Amidase; Region: Amidase; cl11426 1235461011562 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1235461011563 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1235461011564 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1235461011565 putative ligand binding site [chemical binding]; other site 1235461011566 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1235461011567 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461011568 cyclase homology domain; Region: CHD; cd07302 1235461011569 nucleotidyl binding site; other site 1235461011570 metal binding site [ion binding]; metal-binding site 1235461011571 dimer interface [polypeptide binding]; other site 1235461011572 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1235461011573 active site 1235461011574 DNA polymerase IV; Validated; Region: PRK02406 1235461011575 DNA binding site [nucleotide binding] 1235461011576 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461011577 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461011578 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461011579 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1235461011580 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1235461011581 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1235461011582 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461011583 catalytic loop [active] 1235461011584 iron binding site [ion binding]; other site 1235461011585 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461011586 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461011587 S-adenosylmethionine binding site [chemical binding]; other site 1235461011588 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 1235461011589 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1235461011590 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1235461011591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461011592 NAD(P) binding site [chemical binding]; other site 1235461011593 active site 1235461011594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461011595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461011596 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461011597 putative effector binding pocket; other site 1235461011598 putative dimerization interface [polypeptide binding]; other site 1235461011599 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1235461011600 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1235461011601 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1235461011602 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1235461011603 N-terminal plug; other site 1235461011604 ligand-binding site [chemical binding]; other site 1235461011605 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461011606 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461011607 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1235461011608 IucA / IucC family; Region: IucA_IucC; pfam04183 1235461011609 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1235461011610 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 1235461011611 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461011612 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1235461011613 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1235461011614 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1235461011615 IucA / IucC family; Region: IucA_IucC; pfam04183 1235461011616 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1235461011617 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1235461011618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461011619 catalytic residue [active] 1235461011620 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1235461011621 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461011622 inhibitor-cofactor binding pocket; inhibition site 1235461011623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461011624 catalytic residue [active] 1235461011625 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1235461011626 muropeptide transporter; Validated; Region: ampG; cl17669 1235461011627 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1235461011628 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1235461011629 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461011630 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1235461011631 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1235461011632 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1235461011633 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1235461011634 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1235461011635 Ligand Binding Site [chemical binding]; other site 1235461011636 GAF domain; Region: GAF_3; pfam13492 1235461011637 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461011638 dimer interface [polypeptide binding]; other site 1235461011639 phosphorylation site [posttranslational modification] 1235461011640 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461011641 ATP binding site [chemical binding]; other site 1235461011642 Mg2+ binding site [ion binding]; other site 1235461011643 G-X-G motif; other site 1235461011644 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461011645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461011646 active site 1235461011647 phosphorylation site [posttranslational modification] 1235461011648 intermolecular recognition site; other site 1235461011649 dimerization interface [polypeptide binding]; other site 1235461011650 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461011651 DNA binding site [nucleotide binding] 1235461011652 Ion channel; Region: Ion_trans_2; pfam07885 1235461011653 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1235461011654 Part of AAA domain; Region: AAA_19; pfam13245 1235461011655 Family description; Region: UvrD_C_2; pfam13538 1235461011656 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1235461011657 active site 1235461011658 substrate binding pocket [chemical binding]; other site 1235461011659 dimer interface [polypeptide binding]; other site 1235461011660 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1235461011661 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461011662 TM-ABC transporter signature motif; other site 1235461011663 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1235461011664 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1235461011665 TM-ABC transporter signature motif; other site 1235461011666 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461011667 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1235461011668 Walker A/P-loop; other site 1235461011669 ATP binding site [chemical binding]; other site 1235461011670 Q-loop/lid; other site 1235461011671 ABC transporter signature motif; other site 1235461011672 Walker B; other site 1235461011673 D-loop; other site 1235461011674 H-loop/switch region; other site 1235461011675 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1235461011676 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1235461011677 Walker A/P-loop; other site 1235461011678 ATP binding site [chemical binding]; other site 1235461011679 Q-loop/lid; other site 1235461011680 ABC transporter signature motif; other site 1235461011681 Walker B; other site 1235461011682 D-loop; other site 1235461011683 H-loop/switch region; other site 1235461011684 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1235461011685 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1235461011686 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 1235461011687 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 1235461011688 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 1235461011689 dimer interface [polypeptide binding]; other site 1235461011690 substrate binding site [chemical binding]; other site 1235461011691 phosphate binding site [ion binding]; other site 1235461011692 2-phospho-L-lactate guanylyltransferase; Region: F420_cofC; TIGR03552 1235461011693 FO synthase; Reviewed; Region: fbiC; PRK09234 1235461011694 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461011695 FeS/SAM binding site; other site 1235461011696 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1235461011697 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1235461011698 Coenzyme A transferase; Region: CoA_trans; cl17247 1235461011699 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 1235461011700 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1235461011701 acetylornithine deacetylase; Validated; Region: PRK06915 1235461011702 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 1235461011703 metal binding site [ion binding]; metal-binding site 1235461011704 dimer interface [polypeptide binding]; other site 1235461011705 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1235461011706 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1235461011707 ligand binding site [chemical binding]; other site 1235461011708 homodimer interface [polypeptide binding]; other site 1235461011709 NAD(P) binding site [chemical binding]; other site 1235461011710 trimer interface B [polypeptide binding]; other site 1235461011711 trimer interface A [polypeptide binding]; other site 1235461011712 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1235461011713 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1235461011714 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1235461011715 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461011716 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461011717 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461011718 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 1235461011719 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461011720 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461011721 catalytic loop [active] 1235461011722 iron binding site [ion binding]; other site 1235461011723 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461011724 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1235461011725 putative hydrophobic ligand binding site [chemical binding]; other site 1235461011726 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1235461011727 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1235461011728 ligand binding site [chemical binding]; other site 1235461011729 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 1235461011730 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1235461011731 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461011732 catalytic residue [active] 1235461011733 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1235461011734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461011735 DNA-binding site [nucleotide binding]; DNA binding site 1235461011736 UTRA domain; Region: UTRA; cl17743 1235461011737 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1235461011738 putative C-terminal domain interface [polypeptide binding]; other site 1235461011739 putative GSH binding site (G-site) [chemical binding]; other site 1235461011740 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461011741 putative dimer interface [polypeptide binding]; other site 1235461011742 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1235461011743 dimer interface [polypeptide binding]; other site 1235461011744 N-terminal domain interface [polypeptide binding]; other site 1235461011745 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461011746 aminoglycoside resistance protein; Provisional; Region: PRK13746 1235461011747 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1235461011748 active site 1235461011749 NTP binding site [chemical binding]; other site 1235461011750 metal binding triad [ion binding]; metal-binding site 1235461011751 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1235461011752 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461011753 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461011754 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461011755 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461011756 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461011757 active site 1235461011758 catalytic tetrad [active] 1235461011759 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461011760 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461011761 Walker A/P-loop; other site 1235461011762 ATP binding site [chemical binding]; other site 1235461011763 Q-loop/lid; other site 1235461011764 ABC transporter signature motif; other site 1235461011765 Walker B; other site 1235461011766 D-loop; other site 1235461011767 H-loop/switch region; other site 1235461011768 TOBE domain; Region: TOBE_2; pfam08402 1235461011769 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461011770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461011771 dimer interface [polypeptide binding]; other site 1235461011772 conserved gate region; other site 1235461011773 putative PBP binding loops; other site 1235461011774 ABC-ATPase subunit interface; other site 1235461011775 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1235461011776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461011777 dimer interface [polypeptide binding]; other site 1235461011778 conserved gate region; other site 1235461011779 putative PBP binding loops; other site 1235461011780 ABC-ATPase subunit interface; other site 1235461011781 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461011782 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461011783 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1235461011784 non-specific DNA interactions [nucleotide binding]; other site 1235461011785 DNA binding site [nucleotide binding] 1235461011786 sequence specific DNA binding site [nucleotide binding]; other site 1235461011787 putative cAMP binding site [chemical binding]; other site 1235461011788 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1235461011789 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1235461011790 nucleotide binding site [chemical binding]; other site 1235461011791 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461011792 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461011793 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461011794 metal binding site [ion binding]; metal-binding site 1235461011795 active site 1235461011796 I-site; other site 1235461011797 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1235461011798 Bacterial SH3 domain; Region: SH3_3; pfam08239 1235461011799 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1235461011800 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1235461011801 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1235461011802 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1235461011803 Transglycosylase; Region: Transgly; pfam00912 1235461011804 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1235461011805 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461011806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461011807 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461011808 dimerization interface [polypeptide binding]; other site 1235461011809 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1235461011810 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1235461011811 active site 1235461011812 FMN binding site [chemical binding]; other site 1235461011813 substrate binding site [chemical binding]; other site 1235461011814 putative catalytic residue [active] 1235461011815 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461011816 homotrimer interaction site [polypeptide binding]; other site 1235461011817 putative active site [active] 1235461011818 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461011819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461011820 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1235461011821 dimerization interface [polypeptide binding]; other site 1235461011822 substrate binding pocket [chemical binding]; other site 1235461011823 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461011824 Uncharacterized conserved protein [Function unknown]; Region: COG5642 1235461011825 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1235461011826 Uncharacterized conserved protein [Function unknown]; Region: COG5654 1235461011827 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1235461011828 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1235461011829 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1235461011830 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_7; cd08353 1235461011831 putative dimer interface [polypeptide binding]; other site 1235461011832 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461011833 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1235461011834 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461011835 active site 1235461011836 DNA binding site [nucleotide binding] 1235461011837 Int/Topo IB signature motif; other site 1235461011838 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1235461011839 putative active site [active] 1235461011840 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1235461011841 TfuA-like protein; Region: TfuA; pfam07812 1235461011842 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 1235461011843 YcaO-like family; Region: YcaO; pfam02624 1235461011844 Sterile alpha motif; Region: SAM; smart00454 1235461011845 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 1235461011846 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461011847 cyclase homology domain; Region: CHD; cd07302 1235461011848 nucleotidyl binding site; other site 1235461011849 metal binding site [ion binding]; metal-binding site 1235461011850 dimer interface [polypeptide binding]; other site 1235461011851 AAA ATPase domain; Region: AAA_16; pfam13191 1235461011852 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461011853 TPR motif; other site 1235461011854 binding surface 1235461011855 TPR repeat; Region: TPR_11; pfam13414 1235461011856 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1235461011857 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1235461011858 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1235461011859 Walker A motif; other site 1235461011860 ATP binding site [chemical binding]; other site 1235461011861 Caspase domain; Region: Peptidase_C14; pfam00656 1235461011862 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1235461011863 active site 1235461011864 DNA binding site [nucleotide binding] 1235461011865 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 1235461011866 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1235461011867 DNA binding site [nucleotide binding] 1235461011868 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1235461011869 nucleotide binding site [chemical binding]; other site 1235461011870 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461011871 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461011872 putative active site [active] 1235461011873 putative NTP binding site [chemical binding]; other site 1235461011874 putative nucleic acid binding site [nucleotide binding]; other site 1235461011875 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461011876 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461011877 Transposase domain (DUF772); Region: DUF772; pfam05598 1235461011878 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461011879 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461011880 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 1235461011881 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1235461011882 Domain of unknown function DUF302; Region: DUF302; cl01364 1235461011883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461011884 putative substrate translocation pore; other site 1235461011885 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1235461011886 Cupin domain; Region: Cupin_2; cl17218 1235461011887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461011888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461011889 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461011890 dimerization interface [polypeptide binding]; other site 1235461011891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461011892 NAD(P) binding site [chemical binding]; other site 1235461011893 active site 1235461011894 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1235461011895 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1235461011896 active site 1235461011897 nucleophile elbow; other site 1235461011898 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 1235461011899 hypothetical protein; Provisional; Region: PRK05409 1235461011900 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1235461011901 DoxX; Region: DoxX; pfam07681 1235461011902 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1235461011903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461011904 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461011905 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461011906 cyclase homology domain; Region: CHD; cd07302 1235461011907 nucleotidyl binding site; other site 1235461011908 metal binding site [ion binding]; metal-binding site 1235461011909 dimer interface [polypeptide binding]; other site 1235461011910 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1235461011911 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461011912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461011913 active site 1235461011914 phosphorylation site [posttranslational modification] 1235461011915 intermolecular recognition site; other site 1235461011916 dimerization interface [polypeptide binding]; other site 1235461011917 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461011918 cyclase homology domain; Region: CHD; cd07302 1235461011919 nucleotidyl binding site; other site 1235461011920 metal binding site [ion binding]; metal-binding site 1235461011921 dimer interface [polypeptide binding]; other site 1235461011922 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461011923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461011924 active site 1235461011925 phosphorylation site [posttranslational modification] 1235461011926 intermolecular recognition site; other site 1235461011927 dimerization interface [polypeptide binding]; other site 1235461011928 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1235461011929 GAF domain; Region: GAF; pfam01590 1235461011930 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1235461011931 GAF domain; Region: GAF; pfam01590 1235461011932 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1235461011933 GAF domain; Region: GAF; pfam01590 1235461011934 GAF domain; Region: GAF; pfam01590 1235461011935 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461011936 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461011937 dimer interface [polypeptide binding]; other site 1235461011938 phosphorylation site [posttranslational modification] 1235461011939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461011940 ATP binding site [chemical binding]; other site 1235461011941 Mg2+ binding site [ion binding]; other site 1235461011942 G-X-G motif; other site 1235461011943 Bacterial transcriptional activator domain; Region: BTAD; smart01043 1235461011944 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461011945 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461011946 TPR repeat; Region: TPR_11; pfam13414 1235461011947 binding surface 1235461011948 TPR motif; other site 1235461011949 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461011950 binding surface 1235461011951 TPR motif; other site 1235461011952 OsmC-like protein; Region: OsmC; pfam02566 1235461011953 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1235461011954 alkyl hydroperoxide reductase subunit F; Region: AhpF; TIGR03140 1235461011955 DsrE/DsrF-like family; Region: DrsE; pfam02635 1235461011956 short chain dehydrogenase; Provisional; Region: PRK06197 1235461011957 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1235461011958 putative NAD(P) binding site [chemical binding]; other site 1235461011959 active site 1235461011960 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461011961 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1235461011962 NAD(P) binding site [chemical binding]; other site 1235461011963 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461011964 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461011965 SnoaL-like domain; Region: SnoaL_4; pfam13577 1235461011966 Cupin; Region: Cupin_6; pfam12852 1235461011967 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461011968 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461011969 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461011970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461011971 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461011972 active site 1235461011973 phosphorylation site [posttranslational modification] 1235461011974 intermolecular recognition site; other site 1235461011975 dimerization interface [polypeptide binding]; other site 1235461011976 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461011977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461011978 active site 1235461011979 phosphorylation site [posttranslational modification] 1235461011980 intermolecular recognition site; other site 1235461011981 dimerization interface [polypeptide binding]; other site 1235461011982 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461011983 DNA binding residues [nucleotide binding] 1235461011984 dimerization interface [polypeptide binding]; other site 1235461011985 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461011986 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461011987 putative active site [active] 1235461011988 heme pocket [chemical binding]; other site 1235461011989 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461011990 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461011991 putative active site [active] 1235461011992 heme pocket [chemical binding]; other site 1235461011993 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461011994 putative active site [active] 1235461011995 heme pocket [chemical binding]; other site 1235461011996 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461011997 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461011998 ATP binding site [chemical binding]; other site 1235461011999 Mg2+ binding site [ion binding]; other site 1235461012000 G-X-G motif; other site 1235461012001 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461012002 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461012003 Tubulin like; Region: Tubulin_2; pfam13809 1235461012004 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1235461012005 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461012006 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1235461012007 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461012008 putative NAD(P) binding site [chemical binding]; other site 1235461012009 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1235461012010 active site 1 [active] 1235461012011 dimer interface [polypeptide binding]; other site 1235461012012 hexamer interface [polypeptide binding]; other site 1235461012013 active site 2 [active] 1235461012014 Predicted transcriptional regulator [Transcription]; Region: COG2944 1235461012015 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461012016 non-specific DNA binding site [nucleotide binding]; other site 1235461012017 salt bridge; other site 1235461012018 sequence-specific DNA binding site [nucleotide binding]; other site 1235461012019 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1235461012020 EVE domain; Region: EVE; cl00728 1235461012021 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 1235461012022 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1235461012023 active site 1235461012024 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 1235461012025 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1235461012026 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 1235461012027 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461012028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461012029 homodimer interface [polypeptide binding]; other site 1235461012030 catalytic residue [active] 1235461012031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461012032 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1235461012033 NAD(P) binding site [chemical binding]; other site 1235461012034 active site 1235461012035 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461012036 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461012037 Walker A/P-loop; other site 1235461012038 ATP binding site [chemical binding]; other site 1235461012039 Q-loop/lid; other site 1235461012040 ABC transporter signature motif; other site 1235461012041 Walker B; other site 1235461012042 D-loop; other site 1235461012043 H-loop/switch region; other site 1235461012044 TOBE domain; Region: TOBE_2; pfam08402 1235461012045 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461012046 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461012047 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461012048 dimer interface [polypeptide binding]; other site 1235461012049 conserved gate region; other site 1235461012050 putative PBP binding loops; other site 1235461012051 ABC-ATPase subunit interface; other site 1235461012052 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461012053 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461012054 dimer interface [polypeptide binding]; other site 1235461012055 conserved gate region; other site 1235461012056 putative PBP binding loops; other site 1235461012057 ABC-ATPase subunit interface; other site 1235461012058 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1235461012059 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1235461012060 NAD binding site [chemical binding]; other site 1235461012061 dimerization interface [polypeptide binding]; other site 1235461012062 product binding site; other site 1235461012063 substrate binding site [chemical binding]; other site 1235461012064 zinc binding site [ion binding]; other site 1235461012065 catalytic residues [active] 1235461012066 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461012067 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1235461012068 NAD(P) binding site [chemical binding]; other site 1235461012069 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1235461012070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461012071 DNA-binding site [nucleotide binding]; DNA binding site 1235461012072 UTRA domain; Region: UTRA; pfam07702 1235461012073 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1235461012074 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1235461012075 phosphate binding site [ion binding]; other site 1235461012076 Uncharacterized conserved protein [Function unknown]; Region: COG5588 1235461012077 conserved hypothetical protein; Region: TIGR02118 1235461012078 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1235461012079 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1235461012080 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1235461012081 active site 1235461012082 DNA binding site [nucleotide binding] 1235461012083 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1235461012084 DNA binding site [nucleotide binding] 1235461012085 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1235461012086 nucleotide binding site [chemical binding]; other site 1235461012087 GXWXG protein; Region: GXWXG; pfam14231 1235461012088 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 1235461012089 Protein of unknown function (DUF768); Region: DUF768; pfam05589 1235461012090 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1235461012091 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1235461012092 DNA binding site [nucleotide binding] 1235461012093 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1235461012094 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1235461012095 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461012096 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012097 PAS fold; Region: PAS_3; pfam08447 1235461012098 putative active site [active] 1235461012099 heme pocket [chemical binding]; other site 1235461012100 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461012101 dimer interface [polypeptide binding]; other site 1235461012102 phosphorylation site [posttranslational modification] 1235461012103 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461012104 ATP binding site [chemical binding]; other site 1235461012105 Mg2+ binding site [ion binding]; other site 1235461012106 G-X-G motif; other site 1235461012107 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 1235461012108 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461012109 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461012110 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461012111 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461012112 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1235461012113 dimer interface [polypeptide binding]; other site 1235461012114 phosphorylation site [posttranslational modification] 1235461012115 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461012116 ATP binding site [chemical binding]; other site 1235461012117 Mg2+ binding site [ion binding]; other site 1235461012118 G-X-G motif; other site 1235461012119 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1235461012120 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461012121 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461012122 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1235461012123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461012124 NAD(P) binding site [chemical binding]; other site 1235461012125 active site 1235461012126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461012127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461012128 ATP binding site [chemical binding]; other site 1235461012129 Mg2+ binding site [ion binding]; other site 1235461012130 G-X-G motif; other site 1235461012131 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1235461012132 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461012133 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1235461012134 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1235461012135 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1235461012136 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461012137 Walker A/P-loop; other site 1235461012138 ATP binding site [chemical binding]; other site 1235461012139 Q-loop/lid; other site 1235461012140 ABC transporter signature motif; other site 1235461012141 Walker B; other site 1235461012142 D-loop; other site 1235461012143 H-loop/switch region; other site 1235461012144 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461012145 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1235461012146 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461012147 Walker A/P-loop; other site 1235461012148 ATP binding site [chemical binding]; other site 1235461012149 Q-loop/lid; other site 1235461012150 ABC transporter signature motif; other site 1235461012151 Walker B; other site 1235461012152 D-loop; other site 1235461012153 H-loop/switch region; other site 1235461012154 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1235461012155 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461012156 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461012157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461012158 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012159 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461012160 putative active site [active] 1235461012161 heme pocket [chemical binding]; other site 1235461012162 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012163 putative active site [active] 1235461012164 heme pocket [chemical binding]; other site 1235461012165 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461012166 dimer interface [polypeptide binding]; other site 1235461012167 phosphorylation site [posttranslational modification] 1235461012168 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461012169 ATP binding site [chemical binding]; other site 1235461012170 Mg2+ binding site [ion binding]; other site 1235461012171 G-X-G motif; other site 1235461012172 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461012173 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012174 active site 1235461012175 phosphorylation site [posttranslational modification] 1235461012176 intermolecular recognition site; other site 1235461012177 dimerization interface [polypeptide binding]; other site 1235461012178 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461012179 dimerization interface [polypeptide binding]; other site 1235461012180 DNA binding residues [nucleotide binding] 1235461012181 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1235461012182 active site 1235461012183 nucleophile elbow; other site 1235461012184 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1235461012185 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461012186 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461012187 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1235461012188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461012189 putative substrate translocation pore; other site 1235461012190 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 1235461012191 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461012192 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461012193 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012194 putative active site [active] 1235461012195 heme pocket [chemical binding]; other site 1235461012196 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012197 putative active site [active] 1235461012198 heme pocket [chemical binding]; other site 1235461012199 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012200 PAS fold; Region: PAS_3; pfam08447 1235461012201 putative active site [active] 1235461012202 heme pocket [chemical binding]; other site 1235461012203 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461012204 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461012205 ATP binding site [chemical binding]; other site 1235461012206 Mg2+ binding site [ion binding]; other site 1235461012207 G-X-G motif; other site 1235461012208 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461012209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012210 active site 1235461012211 phosphorylation site [posttranslational modification] 1235461012212 intermolecular recognition site; other site 1235461012213 dimerization interface [polypeptide binding]; other site 1235461012214 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461012215 dimerization interface [polypeptide binding]; other site 1235461012216 DNA binding residues [nucleotide binding] 1235461012217 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012218 active site 1235461012219 phosphorylation site [posttranslational modification] 1235461012220 intermolecular recognition site; other site 1235461012221 dimerization interface [polypeptide binding]; other site 1235461012222 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461012223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012224 active site 1235461012225 phosphorylation site [posttranslational modification] 1235461012226 intermolecular recognition site; other site 1235461012227 dimerization interface [polypeptide binding]; other site 1235461012228 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461012229 DNA binding residues [nucleotide binding] 1235461012230 dimerization interface [polypeptide binding]; other site 1235461012231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1235461012232 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1235461012233 glycosyltransferase, MGT family; Region: MGT; TIGR01426 1235461012234 active site 1235461012235 TDP-binding site; other site 1235461012236 acceptor substrate-binding pocket; other site 1235461012237 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 1235461012238 EVE domain; Region: EVE; cl00728 1235461012239 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461012240 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1235461012241 Walker A motif; other site 1235461012242 ATP binding site [chemical binding]; other site 1235461012243 Walker B motif; other site 1235461012244 arginine finger; other site 1235461012245 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1235461012246 putative catalytic site [active] 1235461012247 putative metal binding site [ion binding]; other site 1235461012248 putative phosphate binding site [ion binding]; other site 1235461012249 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1235461012250 cyclase homology domain; Region: CHD; cd07302 1235461012251 nucleotidyl binding site; other site 1235461012252 metal binding site [ion binding]; metal-binding site 1235461012253 dimer interface [polypeptide binding]; other site 1235461012254 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461012255 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461012256 dimer interface [polypeptide binding]; other site 1235461012257 phosphorylation site [posttranslational modification] 1235461012258 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461012259 ATP binding site [chemical binding]; other site 1235461012260 Mg2+ binding site [ion binding]; other site 1235461012261 G-X-G motif; other site 1235461012262 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461012263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012264 active site 1235461012265 phosphorylation site [posttranslational modification] 1235461012266 intermolecular recognition site; other site 1235461012267 dimerization interface [polypeptide binding]; other site 1235461012268 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461012269 DNA binding residues [nucleotide binding] 1235461012270 dimerization interface [polypeptide binding]; other site 1235461012271 Epoxide hydrolase N terminus; Region: EHN; pfam06441 1235461012272 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461012273 Epoxide hydrolase N terminus; Region: EHN; pfam06441 1235461012274 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461012275 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1235461012276 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461012277 short chain dehydrogenase; Validated; Region: PRK08264 1235461012278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461012279 NAD(P) binding site [chemical binding]; other site 1235461012280 active site 1235461012281 Predicted transcriptional regulator [Transcription]; Region: COG2944 1235461012282 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461012283 non-specific DNA binding site [nucleotide binding]; other site 1235461012284 salt bridge; other site 1235461012285 sequence-specific DNA binding site [nucleotide binding]; other site 1235461012286 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1235461012287 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461012288 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1235461012289 putative active site [active] 1235461012290 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1235461012291 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1235461012292 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1235461012293 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1235461012294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461012295 NAD(P) binding site [chemical binding]; other site 1235461012296 active site 1235461012297 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1235461012298 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1235461012299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461012300 putative substrate translocation pore; other site 1235461012301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012303 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461012304 putative effector binding pocket; other site 1235461012305 putative dimerization interface [polypeptide binding]; other site 1235461012306 Helix-turn-helix domain; Region: HTH_17; cl17695 1235461012307 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1235461012308 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461012309 Coenzyme A binding pocket [chemical binding]; other site 1235461012310 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1235461012311 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1235461012312 Fic family protein [Function unknown]; Region: COG3177 1235461012313 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1235461012314 Fic/DOC family; Region: Fic; pfam02661 1235461012315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1235461012316 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1235461012317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1235461012318 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461012319 DNA-binding site [nucleotide binding]; DNA binding site 1235461012320 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461012321 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1235461012322 DNA-binding site [nucleotide binding]; DNA binding site 1235461012323 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461012324 aconitate hydratase; Provisional; Region: acnA; PRK12881 1235461012325 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1235461012326 substrate binding site [chemical binding]; other site 1235461012327 ligand binding site [chemical binding]; other site 1235461012328 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1235461012329 substrate binding site [chemical binding]; other site 1235461012330 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1235461012331 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1235461012332 potential catalytic triad [active] 1235461012333 conserved cys residue [active] 1235461012334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461012335 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012337 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461012338 putative effector binding pocket; other site 1235461012339 dimerization interface [polypeptide binding]; other site 1235461012340 CHAD domain; Region: CHAD; cl10506 1235461012341 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1235461012342 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1235461012343 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1235461012344 Predicted transcriptional regulators [Transcription]; Region: COG1733 1235461012345 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1235461012346 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1235461012347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461012348 NAD(P) binding site [chemical binding]; other site 1235461012349 active site 1235461012350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012352 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1235461012353 substrate binding pocket [chemical binding]; other site 1235461012354 dimerization interface [polypeptide binding]; other site 1235461012355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012357 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1235461012358 substrate binding pocket [chemical binding]; other site 1235461012359 dimerization interface [polypeptide binding]; other site 1235461012360 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1235461012361 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1235461012362 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 1235461012363 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461012364 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461012365 ligand binding site [chemical binding]; other site 1235461012366 flexible hinge region; other site 1235461012367 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1235461012368 EamA-like transporter family; Region: EamA; pfam00892 1235461012369 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461012370 EamA-like transporter family; Region: EamA; pfam00892 1235461012371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012373 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461012374 dimerization interface [polypeptide binding]; other site 1235461012375 hypothetical protein; Provisional; Region: PRK06834 1235461012376 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1235461012377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461012378 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1235461012379 putative substrate translocation pore; other site 1235461012380 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1235461012381 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461012382 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012384 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1235461012385 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]; Region: COG1936 1235461012386 AAA domain; Region: AAA_17; pfam13207 1235461012387 Dienelactone hydrolase family; Region: DLH; pfam01738 1235461012388 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1235461012389 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461012390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461012391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461012392 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461012393 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1235461012394 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461012395 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1235461012396 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1235461012397 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461012398 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461012399 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461012400 Predicted membrane protein [Function unknown]; Region: COG2259 1235461012401 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461012402 dimerization interface [polypeptide binding]; other site 1235461012403 putative DNA binding site [nucleotide binding]; other site 1235461012404 putative Zn2+ binding site [ion binding]; other site 1235461012405 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1235461012406 hydrophobic ligand binding site; other site 1235461012407 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 1235461012408 putative hydrophobic ligand binding site [chemical binding]; other site 1235461012409 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461012410 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461012411 putative substrate translocation pore; other site 1235461012412 hypothetical protein; Provisional; Region: PRK06184 1235461012413 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1235461012414 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1235461012415 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1235461012416 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461012417 putative DNA binding site [nucleotide binding]; other site 1235461012418 putative Zn2+ binding site [ion binding]; other site 1235461012419 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1235461012420 transmembrane helices; other site 1235461012421 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1235461012422 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1235461012423 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 1235461012424 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1235461012425 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1235461012426 Transglycosylase; Region: Transgly; pfam00912 1235461012427 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1235461012428 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1235461012429 BA14K-like protein; Region: BA14K; pfam07886 1235461012430 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1235461012431 active site 1235461012432 catalytic residues [active] 1235461012433 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1235461012434 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1235461012435 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1235461012436 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1235461012437 SelR domain; Region: SelR; pfam01641 1235461012438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012440 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461012441 dimerization interface [polypeptide binding]; other site 1235461012442 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1235461012443 PHB binding site; other site 1235461012444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461012445 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461012446 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461012447 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461012448 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461012449 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1235461012450 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461012451 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461012452 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1235461012453 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461012454 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461012455 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461012456 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461012457 TM-ABC transporter signature motif; other site 1235461012458 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1235461012459 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461012460 Walker A/P-loop; other site 1235461012461 ATP binding site [chemical binding]; other site 1235461012462 Q-loop/lid; other site 1235461012463 ABC transporter signature motif; other site 1235461012464 Walker B; other site 1235461012465 D-loop; other site 1235461012466 H-loop/switch region; other site 1235461012467 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461012468 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461012469 TM-ABC transporter signature motif; other site 1235461012470 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461012471 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1235461012472 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461012473 DNA binding site [nucleotide binding] 1235461012474 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1235461012475 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461012476 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461012477 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461012478 S-adenosylmethionine binding site [chemical binding]; other site 1235461012479 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1235461012480 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1235461012481 Walker A/P-loop; other site 1235461012482 ATP binding site [chemical binding]; other site 1235461012483 Q-loop/lid; other site 1235461012484 ABC transporter signature motif; other site 1235461012485 Walker B; other site 1235461012486 D-loop; other site 1235461012487 H-loop/switch region; other site 1235461012488 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1235461012489 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461012490 ABC-ATPase subunit interface; other site 1235461012491 dimer interface [polypeptide binding]; other site 1235461012492 putative PBP binding regions; other site 1235461012493 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1235461012494 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461012495 ABC-ATPase subunit interface; other site 1235461012496 dimer interface [polypeptide binding]; other site 1235461012497 putative PBP binding regions; other site 1235461012498 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1235461012499 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1235461012500 intersubunit interface [polypeptide binding]; other site 1235461012501 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1235461012502 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1235461012503 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461012504 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461012505 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461012506 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461012507 putative DNA binding site [nucleotide binding]; other site 1235461012508 putative Zn2+ binding site [ion binding]; other site 1235461012509 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461012510 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461012511 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461012512 Walker A/P-loop; other site 1235461012513 ATP binding site [chemical binding]; other site 1235461012514 Q-loop/lid; other site 1235461012515 ABC transporter signature motif; other site 1235461012516 Walker B; other site 1235461012517 D-loop; other site 1235461012518 H-loop/switch region; other site 1235461012519 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461012520 Walker A/P-loop; other site 1235461012521 ATP binding site [chemical binding]; other site 1235461012522 Q-loop/lid; other site 1235461012523 ABC transporter signature motif; other site 1235461012524 Walker B; other site 1235461012525 D-loop; other site 1235461012526 H-loop/switch region; other site 1235461012527 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461012528 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461012529 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461012530 dimer interface [polypeptide binding]; other site 1235461012531 conserved gate region; other site 1235461012532 ABC-ATPase subunit interface; other site 1235461012533 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461012534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461012535 dimer interface [polypeptide binding]; other site 1235461012536 conserved gate region; other site 1235461012537 putative PBP binding loops; other site 1235461012538 ABC-ATPase subunit interface; other site 1235461012539 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461012540 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1235461012541 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1235461012542 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1235461012543 hypothetical protein; Provisional; Region: PRK05965 1235461012544 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461012545 inhibitor-cofactor binding pocket; inhibition site 1235461012546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461012547 catalytic residue [active] 1235461012548 putative acetyltransferase; Provisional; Region: PRK03624 1235461012549 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461012550 Coenzyme A binding pocket [chemical binding]; other site 1235461012551 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1235461012552 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1235461012553 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461012554 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461012555 succinic semialdehyde dehydrogenase; Region: PLN02278 1235461012556 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1235461012557 tetramerization interface [polypeptide binding]; other site 1235461012558 NAD(P) binding site [chemical binding]; other site 1235461012559 catalytic residues [active] 1235461012560 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1235461012561 tartrate dehydrogenase; Region: TTC; TIGR02089 1235461012562 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1235461012563 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461012564 NAD(P) binding site [chemical binding]; other site 1235461012565 catalytic residues [active] 1235461012566 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1235461012567 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1235461012568 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1235461012569 putative ligand binding site [chemical binding]; other site 1235461012570 NAD binding site [chemical binding]; other site 1235461012571 dimerization interface [polypeptide binding]; other site 1235461012572 catalytic site [active] 1235461012573 acetylornithine deacetylase; Provisional; Region: PRK07522 1235461012574 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1235461012575 metal binding site [ion binding]; metal-binding site 1235461012576 putative dimer interface [polypeptide binding]; other site 1235461012577 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1235461012578 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1235461012579 Predicted esterase [General function prediction only]; Region: COG0400 1235461012580 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1235461012581 putative active site [active] 1235461012582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012584 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461012585 putative effector binding pocket; other site 1235461012586 dimerization interface [polypeptide binding]; other site 1235461012587 Helix-turn-helix domain; Region: HTH_18; pfam12833 1235461012588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012590 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461012591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012593 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461012594 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012595 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1235461012596 Isochorismatase family; Region: Isochorismatase; pfam00857 1235461012597 catalytic triad [active] 1235461012598 dimer interface [polypeptide binding]; other site 1235461012599 conserved cis-peptide bond; other site 1235461012600 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 1235461012601 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1235461012602 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1235461012603 active site 1235461012604 Predicted membrane protein [Function unknown]; Region: COG2259 1235461012605 Transmembrane secretion effector; Region: MFS_3; pfam05977 1235461012606 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461012607 putative substrate translocation pore; other site 1235461012608 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1235461012609 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461012610 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461012611 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1235461012612 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1235461012613 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 1235461012614 Sterile alpha motif; Region: SAM; smart00454 1235461012615 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 1235461012616 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461012617 cyclase homology domain; Region: CHD; cd07302 1235461012618 nucleotidyl binding site; other site 1235461012619 metal binding site [ion binding]; metal-binding site 1235461012620 dimer interface [polypeptide binding]; other site 1235461012621 Predicted ATPase [General function prediction only]; Region: COG3899 1235461012622 AAA ATPase domain; Region: AAA_16; pfam13191 1235461012623 Predicted ATPase [General function prediction only]; Region: COG3903 1235461012624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012626 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461012627 dimerization interface [polypeptide binding]; other site 1235461012628 Predicted membrane protein [Function unknown]; Region: COG4125 1235461012629 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1235461012630 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1235461012631 classical (c) SDRs; Region: SDR_c; cd05233 1235461012632 active site 1235461012633 Uncharacterized conserved protein [Function unknown]; Region: COG5397 1235461012634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1235461012635 Predicted membrane protein [Function unknown]; Region: COG2261 1235461012636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 1235461012637 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1235461012638 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461012639 inhibitor-cofactor binding pocket; inhibition site 1235461012640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461012641 catalytic residue [active] 1235461012642 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1235461012643 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1235461012644 active site 1235461012645 ATP binding site [chemical binding]; other site 1235461012646 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461012647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461012648 DNA-binding site [nucleotide binding]; DNA binding site 1235461012649 FCD domain; Region: FCD; pfam07729 1235461012650 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461012651 classical (c) SDRs; Region: SDR_c; cd05233 1235461012652 NAD(P) binding site [chemical binding]; other site 1235461012653 active site 1235461012654 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461012655 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461012656 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461012657 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1235461012658 Walker A/P-loop; other site 1235461012659 ATP binding site [chemical binding]; other site 1235461012660 Q-loop/lid; other site 1235461012661 ABC transporter signature motif; other site 1235461012662 Walker B; other site 1235461012663 D-loop; other site 1235461012664 H-loop/switch region; other site 1235461012665 TOBE domain; Region: TOBE_2; pfam08402 1235461012666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461012667 dimer interface [polypeptide binding]; other site 1235461012668 conserved gate region; other site 1235461012669 putative PBP binding loops; other site 1235461012670 ABC-ATPase subunit interface; other site 1235461012671 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461012672 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461012673 dimer interface [polypeptide binding]; other site 1235461012674 conserved gate region; other site 1235461012675 putative PBP binding loops; other site 1235461012676 ABC-ATPase subunit interface; other site 1235461012677 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461012678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012680 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1235461012681 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1235461012682 N-terminal plug; other site 1235461012683 ligand-binding site [chemical binding]; other site 1235461012684 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1235461012685 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1235461012686 intersubunit interface [polypeptide binding]; other site 1235461012687 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1235461012688 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461012689 ABC-ATPase subunit interface; other site 1235461012690 dimer interface [polypeptide binding]; other site 1235461012691 putative PBP binding regions; other site 1235461012692 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1235461012693 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461012694 ABC-ATPase subunit interface; other site 1235461012695 dimer interface [polypeptide binding]; other site 1235461012696 putative PBP binding regions; other site 1235461012697 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1235461012698 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1235461012699 Walker A/P-loop; other site 1235461012700 ATP binding site [chemical binding]; other site 1235461012701 Q-loop/lid; other site 1235461012702 ABC transporter signature motif; other site 1235461012703 Walker B; other site 1235461012704 D-loop; other site 1235461012705 H-loop/switch region; other site 1235461012706 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 1235461012707 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1235461012708 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1235461012709 FAD binding pocket [chemical binding]; other site 1235461012710 FAD binding motif [chemical binding]; other site 1235461012711 phosphate binding motif [ion binding]; other site 1235461012712 NAD binding pocket [chemical binding]; other site 1235461012713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461012714 Transposase; Region: HTH_Tnp_1; pfam01527 1235461012715 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461012716 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461012717 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 1235461012718 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461012719 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461012720 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461012721 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461012722 Predicted membrane protein [Function unknown]; Region: COG2855 1235461012723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012725 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1235461012726 dimerization interface [polypeptide binding]; other site 1235461012727 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1235461012728 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1235461012729 FAD binding pocket [chemical binding]; other site 1235461012730 FAD binding motif [chemical binding]; other site 1235461012731 phosphate binding motif [ion binding]; other site 1235461012732 beta-alpha-beta structure motif; other site 1235461012733 NAD binding pocket [chemical binding]; other site 1235461012734 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461012735 catalytic loop [active] 1235461012736 iron binding site [ion binding]; other site 1235461012737 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1235461012738 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 1235461012739 iron-sulfur cluster [ion binding]; other site 1235461012740 [2Fe-2S] cluster binding site [ion binding]; other site 1235461012741 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1235461012742 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1235461012743 NAD(P) binding site [chemical binding]; other site 1235461012744 catalytic residues [active] 1235461012745 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1235461012746 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1235461012747 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461012748 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461012749 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1235461012750 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461012751 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1235461012752 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461012753 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1235461012754 conserved cys residue [active] 1235461012755 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012756 Isochorismatase family; Region: Isochorismatase; pfam00857 1235461012757 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1235461012758 catalytic triad [active] 1235461012759 conserved cis-peptide bond; other site 1235461012760 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1235461012761 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 1235461012762 active site 1235461012763 Mn binding site [ion binding]; other site 1235461012764 Predicted transcriptional regulator [Transcription]; Region: COG4957 1235461012765 Predicted membrane protein [Function unknown]; Region: COG4292 1235461012766 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461012767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012768 active site 1235461012769 phosphorylation site [posttranslational modification] 1235461012770 intermolecular recognition site; other site 1235461012771 dimerization interface [polypeptide binding]; other site 1235461012772 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461012773 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012774 active site 1235461012775 phosphorylation site [posttranslational modification] 1235461012776 intermolecular recognition site; other site 1235461012777 dimerization interface [polypeptide binding]; other site 1235461012778 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461012779 DNA binding residues [nucleotide binding] 1235461012780 dimerization interface [polypeptide binding]; other site 1235461012781 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461012782 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461012783 dimer interface [polypeptide binding]; other site 1235461012784 phosphorylation site [posttranslational modification] 1235461012785 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461012786 ATP binding site [chemical binding]; other site 1235461012787 Mg2+ binding site [ion binding]; other site 1235461012788 G-X-G motif; other site 1235461012789 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1235461012790 Sulfatase; Region: Sulfatase; pfam00884 1235461012791 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1235461012792 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461012793 motif II; other site 1235461012794 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 1235461012795 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1235461012796 TPR repeat; Region: TPR_11; pfam13414 1235461012797 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461012798 TPR motif; other site 1235461012799 binding surface 1235461012800 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461012801 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461012802 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1235461012803 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 1235461012804 active site 1235461012805 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1235461012806 TrkA-C domain; Region: TrkA_C; pfam02080 1235461012807 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1235461012808 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1235461012809 peptidase T-like protein; Region: PepT-like; TIGR01883 1235461012810 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1235461012811 metal binding site [ion binding]; metal-binding site 1235461012812 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1235461012813 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1235461012814 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461012815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461012816 Cupin domain; Region: Cupin_2; cl17218 1235461012817 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012819 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461012820 putative effector binding pocket; other site 1235461012821 putative dimerization interface [polypeptide binding]; other site 1235461012822 SnoaL-like domain; Region: SnoaL_2; pfam12680 1235461012823 short chain dehydrogenase; Provisional; Region: PRK06523 1235461012824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461012825 NAD(P) binding site [chemical binding]; other site 1235461012826 active site 1235461012827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1235461012828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461012829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012830 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1235461012831 substrate binding pocket [chemical binding]; other site 1235461012832 dimerization interface [polypeptide binding]; other site 1235461012833 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461012834 MULE transposase domain; Region: MULE; pfam10551 1235461012835 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1235461012836 NAD(P) binding site [chemical binding]; other site 1235461012837 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1235461012838 putative active site [active] 1235461012839 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1235461012840 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1235461012841 FMN binding site [chemical binding]; other site 1235461012842 active site 1235461012843 substrate binding site [chemical binding]; other site 1235461012844 catalytic residue [active] 1235461012845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461012846 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461012847 putative effector binding pocket; other site 1235461012848 dimerization interface [polypeptide binding]; other site 1235461012849 putative cation:proton antiport protein; Provisional; Region: PRK10669 1235461012850 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1235461012851 TrkA-N domain; Region: TrkA_N; pfam02254 1235461012852 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1235461012853 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1235461012854 Transposase; Region: HTH_Tnp_1; pfam01527 1235461012855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461012856 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461012857 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461012858 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461012859 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461012860 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461012861 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461012862 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461012863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461012864 Transposase; Region: HTH_Tnp_1; pfam01527 1235461012865 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461012866 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461012867 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461012868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461012869 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461012870 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461012871 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461012872 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1235461012873 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1235461012874 [2Fe-2S] cluster binding site [ion binding]; other site 1235461012875 Sterile alpha motif; Region: SAM; smart00454 1235461012876 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 1235461012877 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461012878 cyclase homology domain; Region: CHD; cd07302 1235461012879 nucleotidyl binding site; other site 1235461012880 metal binding site [ion binding]; metal-binding site 1235461012881 dimer interface [polypeptide binding]; other site 1235461012882 Predicted ATPase [General function prediction only]; Region: COG3899 1235461012883 AAA ATPase domain; Region: AAA_16; pfam13191 1235461012884 Predicted ATPase [General function prediction only]; Region: COG3903 1235461012885 Predicted ester cyclase [General function prediction only]; Region: COG5485 1235461012886 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1235461012887 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 1235461012888 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1235461012889 active site 1235461012890 catalytic residues [active] 1235461012891 Transposase; Region: HTH_Tnp_1; cl17663 1235461012892 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461012893 cyclase homology domain; Region: CHD; cd07302 1235461012894 nucleotidyl binding site; other site 1235461012895 metal binding site [ion binding]; metal-binding site 1235461012896 dimer interface [polypeptide binding]; other site 1235461012897 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461012898 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461012899 TPR motif; other site 1235461012900 TPR repeat; Region: TPR_11; pfam13414 1235461012901 binding surface 1235461012902 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461012903 binding surface 1235461012904 TPR motif; other site 1235461012905 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461012906 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1235461012907 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1235461012908 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1235461012909 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1235461012910 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1235461012911 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1235461012912 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1235461012913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1235461012914 active site 1235461012915 dimerization interface [polypeptide binding]; other site 1235461012916 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1235461012917 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1235461012918 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1235461012919 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1235461012920 TadE-like protein; Region: TadE; pfam07811 1235461012921 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1235461012922 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1235461012923 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1235461012924 ATP binding site [chemical binding]; other site 1235461012925 Walker A motif; other site 1235461012926 hexamer interface [polypeptide binding]; other site 1235461012927 Walker B motif; other site 1235461012928 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1235461012929 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1235461012930 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1235461012931 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1235461012932 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1235461012933 CheB methylesterase; Region: CheB_methylest; pfam01339 1235461012934 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1235461012935 putative binding surface; other site 1235461012936 active site 1235461012937 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461012938 ATP binding site [chemical binding]; other site 1235461012939 Mg2+ binding site [ion binding]; other site 1235461012940 G-X-G motif; other site 1235461012941 CheW-like domain; Region: CheW; pfam01584 1235461012942 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012943 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461012944 active site 1235461012945 phosphorylation site [posttranslational modification] 1235461012946 intermolecular recognition site; other site 1235461012947 dimerization interface [polypeptide binding]; other site 1235461012948 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1235461012949 dimerization interface [polypeptide binding]; other site 1235461012950 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1235461012951 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1235461012952 dimer interface [polypeptide binding]; other site 1235461012953 putative CheW interface [polypeptide binding]; other site 1235461012954 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1235461012955 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1235461012956 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1235461012957 TPR repeat; Region: TPR_11; pfam13414 1235461012958 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461012959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461012960 active site 1235461012961 phosphorylation site [posttranslational modification] 1235461012962 intermolecular recognition site; other site 1235461012963 dimerization interface [polypeptide binding]; other site 1235461012964 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461012965 DNA binding residues [nucleotide binding] 1235461012966 dimerization interface [polypeptide binding]; other site 1235461012967 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012968 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461012969 putative active site [active] 1235461012970 heme pocket [chemical binding]; other site 1235461012971 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012972 putative active site [active] 1235461012973 heme pocket [chemical binding]; other site 1235461012974 PAS domain S-box; Region: sensory_box; TIGR00229 1235461012975 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012976 putative active site [active] 1235461012977 heme pocket [chemical binding]; other site 1235461012978 PAS fold; Region: PAS_4; pfam08448 1235461012979 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012980 putative active site [active] 1235461012981 heme pocket [chemical binding]; other site 1235461012982 PAS fold; Region: PAS_4; pfam08448 1235461012983 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461012984 putative active site [active] 1235461012985 heme pocket [chemical binding]; other site 1235461012986 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461012987 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461012988 metal binding site [ion binding]; metal-binding site 1235461012989 active site 1235461012990 I-site; other site 1235461012991 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461012992 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1235461012993 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461012994 S-adenosylmethionine binding site [chemical binding]; other site 1235461012995 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1235461012996 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1235461012997 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 1235461012998 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1235461012999 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461013000 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 1235461013001 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461013002 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 1235461013003 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461013004 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 1235461013005 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1235461013006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461013007 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461013008 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461013009 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461013010 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461013011 putative active site [active] 1235461013012 putative NTP binding site [chemical binding]; other site 1235461013013 putative nucleic acid binding site [nucleotide binding]; other site 1235461013014 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461013015 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 1235461013016 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1235461013017 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 1235461013018 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1235461013019 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1235461013020 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1235461013021 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 1235461013022 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1235461013023 putative dimer interface [polypeptide binding]; other site 1235461013024 [2Fe-2S] cluster binding site [ion binding]; other site 1235461013025 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 1235461013026 SLBB domain; Region: SLBB; pfam10531 1235461013027 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1235461013028 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1235461013029 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461013030 catalytic loop [active] 1235461013031 iron binding site [ion binding]; other site 1235461013032 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1235461013033 4Fe-4S binding domain; Region: Fer4; pfam00037 1235461013034 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1235461013035 [4Fe-4S] binding site [ion binding]; other site 1235461013036 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1235461013037 FOG: CBS domain [General function prediction only]; Region: COG0517 1235461013038 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 1235461013039 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1235461013040 4Fe-4S binding domain; Region: Fer4; pfam00037 1235461013041 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1235461013042 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1235461013043 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461013044 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461013045 TM-ABC transporter signature motif; other site 1235461013046 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461013047 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461013048 TM-ABC transporter signature motif; other site 1235461013049 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1235461013050 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461013051 Walker A/P-loop; other site 1235461013052 ATP binding site [chemical binding]; other site 1235461013053 Q-loop/lid; other site 1235461013054 ABC transporter signature motif; other site 1235461013055 Walker B; other site 1235461013056 D-loop; other site 1235461013057 H-loop/switch region; other site 1235461013058 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461013059 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1235461013060 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1235461013061 putative ligand binding site [chemical binding]; other site 1235461013062 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461013063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461013064 DNA-binding site [nucleotide binding]; DNA binding site 1235461013065 FCD domain; Region: FCD; pfam07729 1235461013066 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1235461013067 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1235461013068 hydrophobic ligand binding site; other site 1235461013069 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1235461013070 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1235461013071 hydrophobic ligand binding site; other site 1235461013072 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1235461013073 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1235461013074 [2Fe-2S] cluster binding site [ion binding]; other site 1235461013075 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1235461013076 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1235461013077 FMN-binding pocket [chemical binding]; other site 1235461013078 flavin binding motif; other site 1235461013079 phosphate binding motif [ion binding]; other site 1235461013080 beta-alpha-beta structure motif; other site 1235461013081 NAD binding pocket [chemical binding]; other site 1235461013082 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461013083 catalytic loop [active] 1235461013084 iron binding site [ion binding]; other site 1235461013085 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461013086 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1235461013087 putative C-terminal domain interface [polypeptide binding]; other site 1235461013088 putative GSH binding site (G-site) [chemical binding]; other site 1235461013089 putative dimer interface [polypeptide binding]; other site 1235461013090 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1235461013091 putative N-terminal domain interface [polypeptide binding]; other site 1235461013092 putative dimer interface [polypeptide binding]; other site 1235461013093 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461013094 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1235461013095 homodimer interface [polypeptide binding]; other site 1235461013096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461013097 catalytic residue [active] 1235461013098 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461013099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461013100 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461013101 putative effector binding pocket; other site 1235461013102 putative dimerization interface [polypeptide binding]; other site 1235461013103 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 1235461013104 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461013105 catalytic loop [active] 1235461013106 iron binding site [ion binding]; other site 1235461013107 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461013108 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013109 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461013110 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461013111 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013112 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013113 Cytochrome c; Region: Cytochrom_C; cl11414 1235461013114 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461013115 putative substrate translocation pore; other site 1235461013116 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1235461013117 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461013118 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461013119 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1235461013120 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1235461013121 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461013122 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461013123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461013124 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461013125 dimerization interface [polypeptide binding]; other site 1235461013126 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 1235461013127 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461013128 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1235461013129 conserved cys residue [active] 1235461013130 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013131 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013132 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1235461013133 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1235461013134 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1235461013135 active site 1235461013136 Isochorismatase family; Region: Isochorismatase; pfam00857 1235461013137 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1235461013138 catalytic triad [active] 1235461013139 conserved cis-peptide bond; other site 1235461013140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013141 dimer interface [polypeptide binding]; other site 1235461013142 conserved gate region; other site 1235461013143 ABC-ATPase subunit interface; other site 1235461013144 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1235461013145 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1235461013146 Walker A/P-loop; other site 1235461013147 ATP binding site [chemical binding]; other site 1235461013148 Q-loop/lid; other site 1235461013149 ABC transporter signature motif; other site 1235461013150 Walker B; other site 1235461013151 D-loop; other site 1235461013152 H-loop/switch region; other site 1235461013153 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 1235461013154 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1235461013155 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013156 dimer interface [polypeptide binding]; other site 1235461013157 conserved gate region; other site 1235461013158 putative PBP binding loops; other site 1235461013159 ABC-ATPase subunit interface; other site 1235461013160 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1235461013161 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1235461013162 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1235461013163 active site pocket [active] 1235461013164 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1235461013165 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1235461013166 Uncharacterized conserved protein [Function unknown]; Region: COG5654 1235461013167 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1235461013168 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461013169 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013170 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1235461013171 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1235461013172 NAD binding site [chemical binding]; other site 1235461013173 homodimer interface [polypeptide binding]; other site 1235461013174 homotetramer interface [polypeptide binding]; other site 1235461013175 active site 1235461013176 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1235461013177 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1235461013178 dimer interface [polypeptide binding]; other site 1235461013179 active site 1235461013180 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461013181 putative substrate translocation pore; other site 1235461013182 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461013183 Ferritin-like domain; Region: Ferritin_2; pfam13668 1235461013184 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461013185 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461013186 DNA-binding site [nucleotide binding]; DNA binding site 1235461013187 FCD domain; Region: FCD; pfam07729 1235461013188 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1235461013189 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461013190 putative active site [active] 1235461013191 catalytic residue [active] 1235461013192 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461013193 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 1235461013194 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461013195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013196 dimer interface [polypeptide binding]; other site 1235461013197 conserved gate region; other site 1235461013198 putative PBP binding loops; other site 1235461013199 ABC-ATPase subunit interface; other site 1235461013200 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461013201 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013202 dimer interface [polypeptide binding]; other site 1235461013203 conserved gate region; other site 1235461013204 putative PBP binding loops; other site 1235461013205 ABC-ATPase subunit interface; other site 1235461013206 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461013207 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461013208 Walker A/P-loop; other site 1235461013209 ATP binding site [chemical binding]; other site 1235461013210 Q-loop/lid; other site 1235461013211 ABC transporter signature motif; other site 1235461013212 Walker B; other site 1235461013213 D-loop; other site 1235461013214 H-loop/switch region; other site 1235461013215 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1235461013216 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461013217 Walker A/P-loop; other site 1235461013218 ATP binding site [chemical binding]; other site 1235461013219 Q-loop/lid; other site 1235461013220 ABC transporter signature motif; other site 1235461013221 Walker B; other site 1235461013222 D-loop; other site 1235461013223 H-loop/switch region; other site 1235461013224 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461013225 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461013226 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1235461013227 active site 1235461013228 metal binding site [ion binding]; metal-binding site 1235461013229 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461013230 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1235461013231 NAD(P) binding site [chemical binding]; other site 1235461013232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461013233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461013234 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461013235 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1235461013236 ligand binding site [chemical binding]; other site 1235461013237 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461013238 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461013239 TM-ABC transporter signature motif; other site 1235461013240 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461013241 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461013242 Walker A/P-loop; other site 1235461013243 ATP binding site [chemical binding]; other site 1235461013244 Q-loop/lid; other site 1235461013245 ABC transporter signature motif; other site 1235461013246 Walker B; other site 1235461013247 D-loop; other site 1235461013248 H-loop/switch region; other site 1235461013249 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461013250 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461013251 TM-ABC transporter signature motif; other site 1235461013252 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461013253 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1235461013254 NAD(P) binding site [chemical binding]; other site 1235461013255 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461013256 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1235461013257 NAD(P) binding site [chemical binding]; other site 1235461013258 catalytic residues [active] 1235461013259 choline dehydrogenase; Validated; Region: PRK02106 1235461013260 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1235461013261 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1235461013262 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1235461013263 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461013264 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461013265 active site 1235461013266 catalytic tetrad [active] 1235461013267 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1235461013268 Coenzyme A transferase; Region: CoA_trans; smart00882 1235461013269 Coenzyme A transferase; Region: CoA_trans; cl17247 1235461013270 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1235461013271 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461013272 substrate binding site [chemical binding]; other site 1235461013273 oxyanion hole (OAH) forming residues; other site 1235461013274 trimer interface [polypeptide binding]; other site 1235461013275 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1235461013276 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1235461013277 MOFRL family; Region: MOFRL; pfam05161 1235461013278 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461013279 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461013280 active site 1235461013281 catalytic tetrad [active] 1235461013282 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1235461013283 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1235461013284 active site 1235461013285 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1235461013286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461013287 NAD(P) binding site [chemical binding]; other site 1235461013288 active site 1235461013289 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1235461013290 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1235461013291 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1235461013292 Metal-binding active site; metal-binding site 1235461013293 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1235461013294 Ligand binding site [chemical binding]; other site 1235461013295 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1235461013296 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1235461013297 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1235461013298 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1235461013299 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461013300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461013301 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461013302 dimerization interface [polypeptide binding]; other site 1235461013303 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461013304 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461013305 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1235461013306 catalytic loop [active] 1235461013307 iron binding site [ion binding]; other site 1235461013308 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1235461013309 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461013310 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1235461013311 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1235461013312 Amidase; Region: Amidase; cl11426 1235461013313 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461013314 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1235461013315 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461013316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013317 dimer interface [polypeptide binding]; other site 1235461013318 conserved gate region; other site 1235461013319 putative PBP binding loops; other site 1235461013320 ABC-ATPase subunit interface; other site 1235461013321 dipeptide transporter; Provisional; Region: PRK10913 1235461013322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013323 dimer interface [polypeptide binding]; other site 1235461013324 conserved gate region; other site 1235461013325 putative PBP binding loops; other site 1235461013326 ABC-ATPase subunit interface; other site 1235461013327 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1235461013328 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461013329 Walker A/P-loop; other site 1235461013330 ATP binding site [chemical binding]; other site 1235461013331 Q-loop/lid; other site 1235461013332 ABC transporter signature motif; other site 1235461013333 Walker B; other site 1235461013334 D-loop; other site 1235461013335 H-loop/switch region; other site 1235461013336 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461013337 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1235461013338 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461013339 Walker A/P-loop; other site 1235461013340 ATP binding site [chemical binding]; other site 1235461013341 Q-loop/lid; other site 1235461013342 ABC transporter signature motif; other site 1235461013343 Walker B; other site 1235461013344 D-loop; other site 1235461013345 H-loop/switch region; other site 1235461013346 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1235461013347 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1235461013348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461013349 NAD(P) binding site [chemical binding]; other site 1235461013350 active site 1235461013351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461013352 H-loop/switch region; other site 1235461013353 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461013354 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461013355 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461013356 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1235461013357 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013358 dimer interface [polypeptide binding]; other site 1235461013359 putative PBP binding loops; other site 1235461013360 ABC-ATPase subunit interface; other site 1235461013361 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461013362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013363 dimer interface [polypeptide binding]; other site 1235461013364 conserved gate region; other site 1235461013365 putative PBP binding loops; other site 1235461013366 ABC-ATPase subunit interface; other site 1235461013367 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 1235461013368 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1235461013369 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461013370 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1235461013371 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461013372 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1235461013373 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461013374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461013375 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461013376 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461013377 putative active site [active] 1235461013378 putative NTP binding site [chemical binding]; other site 1235461013379 putative nucleic acid binding site [nucleotide binding]; other site 1235461013380 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461013381 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461013382 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461013383 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461013384 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461013385 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1235461013386 Metal-binding active site; metal-binding site 1235461013387 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461013388 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1235461013389 DNA interaction; other site 1235461013390 Metal-binding active site; metal-binding site 1235461013391 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1235461013392 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1235461013393 active site pocket [active] 1235461013394 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461013395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461013396 DNA-binding site [nucleotide binding]; DNA binding site 1235461013397 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461013398 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1235461013399 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1235461013400 ligand binding site [chemical binding]; other site 1235461013401 NAD binding site [chemical binding]; other site 1235461013402 dimerization interface [polypeptide binding]; other site 1235461013403 catalytic site [active] 1235461013404 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461013405 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461013406 Walker A/P-loop; other site 1235461013407 ATP binding site [chemical binding]; other site 1235461013408 Q-loop/lid; other site 1235461013409 ABC transporter signature motif; other site 1235461013410 Walker B; other site 1235461013411 D-loop; other site 1235461013412 H-loop/switch region; other site 1235461013413 TOBE domain; Region: TOBE_2; pfam08402 1235461013414 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461013415 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461013416 Walker A/P-loop; other site 1235461013417 ATP binding site [chemical binding]; other site 1235461013418 Q-loop/lid; other site 1235461013419 ABC transporter signature motif; other site 1235461013420 Walker B; other site 1235461013421 D-loop; other site 1235461013422 H-loop/switch region; other site 1235461013423 TOBE domain; Region: TOBE_2; pfam08402 1235461013424 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461013425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013426 dimer interface [polypeptide binding]; other site 1235461013427 conserved gate region; other site 1235461013428 putative PBP binding loops; other site 1235461013429 ABC-ATPase subunit interface; other site 1235461013430 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1235461013431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461013432 conserved gate region; other site 1235461013433 dimer interface [polypeptide binding]; other site 1235461013434 putative PBP binding loops; other site 1235461013435 ABC-ATPase subunit interface; other site 1235461013436 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461013437 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461013438 Uncharacterized conserved protein [Function unknown]; Region: COG5441 1235461013439 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1235461013440 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 1235461013441 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]; Region: COG2140 1235461013442 Cupin domain; Region: Cupin_2; pfam07883 1235461013443 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461013444 metabolite-proton symporter; Region: 2A0106; TIGR00883 1235461013445 putative substrate translocation pore; other site 1235461013446 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461013447 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461013448 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1235461013449 TAP-like protein; Region: Abhydrolase_4; pfam08386 1235461013450 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1235461013451 RibD C-terminal domain; Region: RibD_C; cl17279 1235461013452 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1235461013453 N-terminal domain interface [polypeptide binding]; other site 1235461013454 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1235461013455 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1235461013456 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 1235461013457 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 1235461013458 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1235461013459 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1235461013460 Type IV secretion system proteins; Region: T4SS; pfam07996 1235461013461 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1235461013462 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1235461013463 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1235461013464 VirB7 interaction site; other site 1235461013465 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1235461013466 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1235461013467 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1235461013468 Walker A motif; other site 1235461013469 hexamer interface [polypeptide binding]; other site 1235461013470 ATP binding site [chemical binding]; other site 1235461013471 Walker B motif; other site 1235461013472 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461013473 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1235461013474 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461013475 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461013476 Predicted membrane protein [Function unknown]; Region: COG3619 1235461013477 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1235461013478 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1235461013479 NAD binding site [chemical binding]; other site 1235461013480 substrate binding site [chemical binding]; other site 1235461013481 catalytic Zn binding site [ion binding]; other site 1235461013482 tetramer interface [polypeptide binding]; other site 1235461013483 structural Zn binding site [ion binding]; other site 1235461013484 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1235461013485 putative protease; Provisional; Region: PRK15447 1235461013486 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1235461013487 Peptidase family U32; Region: Peptidase_U32; pfam01136 1235461013488 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1235461013489 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1235461013490 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1235461013491 Flavoprotein; Region: Flavoprotein; pfam02441 1235461013492 Predicted membrane protein [Function unknown]; Region: COG4094 1235461013493 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1235461013494 Subunit I/III interface [polypeptide binding]; other site 1235461013495 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461013496 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1235461013497 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1235461013498 D-pathway; other site 1235461013499 K-pathway; other site 1235461013500 Binuclear center (active site) [active] 1235461013501 Putative proton exit pathway; other site 1235461013502 MoxR-like ATPases [General function prediction only]; Region: COG0714 1235461013503 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1235461013504 Walker A motif; other site 1235461013505 ATP binding site [chemical binding]; other site 1235461013506 Walker B motif; other site 1235461013507 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1235461013508 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1235461013509 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1235461013510 metal ion-dependent adhesion site (MIDAS); other site 1235461013511 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1235461013512 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461013513 FeS/SAM binding site; other site 1235461013514 HemN C-terminal domain; Region: HemN_C; pfam06969 1235461013515 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1235461013516 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1235461013517 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1235461013518 putative metal binding site [ion binding]; other site 1235461013519 Pirin-related protein [General function prediction only]; Region: COG1741 1235461013520 Pirin; Region: Pirin; pfam02678 1235461013521 Uncharacterized conserved protein [Function unknown]; Region: COG4309 1235461013522 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1235461013523 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1235461013524 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1235461013525 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1235461013526 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1235461013527 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1235461013528 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1235461013529 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1235461013530 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1235461013531 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461013532 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461013533 ligand binding site [chemical binding]; other site 1235461013534 flexible hinge region; other site 1235461013535 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1235461013536 putative switch regulator; other site 1235461013537 non-specific DNA interactions [nucleotide binding]; other site 1235461013538 DNA binding site [nucleotide binding] 1235461013539 sequence specific DNA binding site [nucleotide binding]; other site 1235461013540 putative cAMP binding site [chemical binding]; other site 1235461013541 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1235461013542 pseudoazurin; Region: pseudoazurin; TIGR02375 1235461013543 Periplasmic nitrate reductase system, NapE component [Energy production and conversion]; Region: NapE; COG4459 1235461013544 ferredoxin-type protein; Provisional; Region: PRK10194 1235461013545 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1235461013546 4Fe-4S binding domain; Region: Fer4; pfam00037 1235461013547 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 1235461013548 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1235461013549 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1235461013550 [4Fe-4S] binding site [ion binding]; other site 1235461013551 molybdopterin cofactor binding site; other site 1235461013552 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1235461013553 molybdopterin cofactor binding site; other site 1235461013554 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 1235461013555 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1235461013556 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1235461013557 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1235461013558 Ligand Binding Site [chemical binding]; other site 1235461013559 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1235461013560 PAS domain S-box; Region: sensory_box; TIGR00229 1235461013561 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461013562 putative active site [active] 1235461013563 heme pocket [chemical binding]; other site 1235461013564 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461013565 dimer interface [polypeptide binding]; other site 1235461013566 phosphorylation site [posttranslational modification] 1235461013567 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461013568 ATP binding site [chemical binding]; other site 1235461013569 Mg2+ binding site [ion binding]; other site 1235461013570 G-X-G motif; other site 1235461013571 response regulator FixJ; Provisional; Region: fixJ; PRK09390 1235461013572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461013573 active site 1235461013574 phosphorylation site [posttranslational modification] 1235461013575 intermolecular recognition site; other site 1235461013576 dimerization interface [polypeptide binding]; other site 1235461013577 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461013578 DNA binding residues [nucleotide binding] 1235461013579 dimerization interface [polypeptide binding]; other site 1235461013580 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1235461013581 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1235461013582 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1235461013583 Low-spin heme binding site [chemical binding]; other site 1235461013584 Putative water exit pathway; other site 1235461013585 Binuclear center (active site) [active] 1235461013586 Putative proton exit pathway; other site 1235461013587 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1235461013588 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1235461013589 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1235461013590 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1235461013591 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1235461013592 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1235461013593 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1235461013594 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1235461013595 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1235461013596 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 1235461013597 FixH; Region: FixH; pfam05751 1235461013598 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1235461013599 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461013600 metal-binding site [ion binding] 1235461013601 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461013602 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1235461013603 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 1235461013604 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461013605 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461013606 ligand binding site [chemical binding]; other site 1235461013607 flexible hinge region; other site 1235461013608 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1235461013609 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1235461013610 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 1235461013611 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1235461013612 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 1235461013613 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1235461013614 Hemerythrin-like domain; Region: Hr-like; cd12108 1235461013615 Fe binding site [ion binding]; other site 1235461013616 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1235461013617 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1235461013618 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1235461013619 heme-binding site [chemical binding]; other site 1235461013620 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1235461013621 FAD binding pocket [chemical binding]; other site 1235461013622 FAD binding motif [chemical binding]; other site 1235461013623 phosphate binding motif [ion binding]; other site 1235461013624 beta-alpha-beta structure motif; other site 1235461013625 NAD binding pocket [chemical binding]; other site 1235461013626 Heme binding pocket [chemical binding]; other site 1235461013627 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1235461013628 ApbE family; Region: ApbE; pfam02424 1235461013629 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 1235461013630 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1235461013631 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1235461013632 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1235461013633 Walker A/P-loop; other site 1235461013634 ATP binding site [chemical binding]; other site 1235461013635 Q-loop/lid; other site 1235461013636 ABC transporter signature motif; other site 1235461013637 Walker B; other site 1235461013638 D-loop; other site 1235461013639 H-loop/switch region; other site 1235461013640 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1235461013641 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1235461013642 nitrous-oxide reductase; Validated; Region: PRK02888 1235461013643 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1235461013644 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1235461013645 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1235461013646 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1235461013647 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1235461013648 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1235461013649 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1235461013650 diiron binding motif [ion binding]; other site 1235461013651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1235461013652 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461013653 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461013655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461013656 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1235461013657 putative effector binding pocket; other site 1235461013658 putative dimerization interface [polypeptide binding]; other site 1235461013659 short chain dehydrogenase; Provisional; Region: PRK12937 1235461013660 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1235461013661 NADP binding site [chemical binding]; other site 1235461013662 homodimer interface [polypeptide binding]; other site 1235461013663 active site 1235461013664 substrate binding site [chemical binding]; other site 1235461013665 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1235461013666 active site 1 [active] 1235461013667 dimer interface [polypeptide binding]; other site 1235461013668 hexamer interface [polypeptide binding]; other site 1235461013669 active site 2 [active] 1235461013670 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461013671 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461013672 active site 1235461013673 catalytic tetrad [active] 1235461013674 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461013675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461013676 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461013677 putative effector binding pocket; other site 1235461013678 putative dimerization interface [polypeptide binding]; other site 1235461013679 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461013680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461013681 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1235461013682 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1235461013683 oligomeric interface; other site 1235461013684 putative active site [active] 1235461013685 homodimer interface [polypeptide binding]; other site 1235461013686 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461013687 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461013688 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461013689 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461013690 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461013691 putative active site [active] 1235461013692 putative NTP binding site [chemical binding]; other site 1235461013693 putative nucleic acid binding site [nucleotide binding]; other site 1235461013694 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461013695 Transposase domain (DUF772); Region: DUF772; pfam05598 1235461013696 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461013697 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461013698 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013699 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461013700 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013701 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013702 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461013703 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461013704 catalytic loop [active] 1235461013705 iron binding site [ion binding]; other site 1235461013706 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461013707 Cytochrome c; Region: Cytochrom_C; cl11414 1235461013708 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1235461013709 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461013710 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461013711 dimer interface [polypeptide binding]; other site 1235461013712 phosphorylation site [posttranslational modification] 1235461013713 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461013714 ATP binding site [chemical binding]; other site 1235461013715 Mg2+ binding site [ion binding]; other site 1235461013716 G-X-G motif; other site 1235461013717 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1235461013718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461013719 active site 1235461013720 phosphorylation site [posttranslational modification] 1235461013721 intermolecular recognition site; other site 1235461013722 dimerization interface [polypeptide binding]; other site 1235461013723 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461013724 DNA binding site [nucleotide binding] 1235461013725 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1235461013726 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461013727 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461013728 dimer interface [polypeptide binding]; other site 1235461013729 phosphorylation site [posttranslational modification] 1235461013730 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461013731 ATP binding site [chemical binding]; other site 1235461013732 Mg2+ binding site [ion binding]; other site 1235461013733 G-X-G motif; other site 1235461013734 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1235461013735 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 1235461013736 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461013737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461013738 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1235461013739 putative effector binding pocket; other site 1235461013740 putative dimerization interface [polypeptide binding]; other site 1235461013741 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461013742 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461013743 active site 1235461013744 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461013745 catalytic tetrad [active] 1235461013746 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cd00421 1235461013747 active site 1235461013748 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1235461013749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1235461013750 Integrase core domain; Region: rve; pfam00665 1235461013751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1235461013752 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1235461013753 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 1235461013754 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461013755 Walker A motif; other site 1235461013756 ATP binding site [chemical binding]; other site 1235461013757 Walker B motif; other site 1235461013758 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 1235461013759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461013760 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461013761 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461013762 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461013763 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461013764 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461013765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461013766 Transposase; Region: HTH_Tnp_1; pfam01527 1235461013767 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1235461013768 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461013769 S-adenosylmethionine binding site [chemical binding]; other site 1235461013770 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 1235461013771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461013772 active site 1235461013773 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1235461013774 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1235461013775 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1235461013776 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1235461013777 short chain dehydrogenase; Provisional; Region: PRK12937 1235461013778 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1235461013779 NADP binding site [chemical binding]; other site 1235461013780 homodimer interface [polypeptide binding]; other site 1235461013781 active site 1235461013782 substrate binding site [chemical binding]; other site 1235461013783 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1235461013784 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461013785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013786 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461013787 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013788 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1235461013789 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461013790 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461013791 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1235461013792 short chain dehydrogenase; Provisional; Region: PRK06197 1235461013793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461013794 NAD(P) binding site [chemical binding]; other site 1235461013795 active site 1235461013796 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461013797 putative substrate translocation pore; other site 1235461013798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461013799 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1235461013800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013801 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461013802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013803 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461013804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461013805 NAD(P) binding site [chemical binding]; other site 1235461013806 active site 1235461013807 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461013808 MarR family; Region: MarR_2; pfam12802 1235461013809 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1235461013810 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1235461013811 putative NAD(P) binding site [chemical binding]; other site 1235461013812 active site 1235461013813 short chain dehydrogenase; Provisional; Region: PRK06197 1235461013814 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1235461013815 putative NAD(P) binding site [chemical binding]; other site 1235461013816 active site 1235461013817 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 1235461013818 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461013819 putative NAD(P) binding site [chemical binding]; other site 1235461013820 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461013821 salt bridge; other site 1235461013822 non-specific DNA binding site [nucleotide binding]; other site 1235461013823 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461013824 sequence-specific DNA binding site [nucleotide binding]; other site 1235461013825 Cupin; Region: Cupin_6; pfam12852 1235461013826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013827 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461013828 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461013829 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461013830 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013831 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461013832 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013833 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461013834 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461013835 catalytic loop [active] 1235461013836 iron binding site [ion binding]; other site 1235461013837 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461013838 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461013839 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013840 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461013841 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013842 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461013843 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461013844 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461013845 catalytic loop [active] 1235461013846 iron binding site [ion binding]; other site 1235461013847 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461013848 Predicted transporter component [General function prediction only]; Region: COG2391 1235461013849 Sulphur transport; Region: Sulf_transp; pfam04143 1235461013850 Predicted transporter component [General function prediction only]; Region: COG2391 1235461013851 Sulphur transport; Region: Sulf_transp; pfam04143 1235461013852 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461013853 Cytochrome c; Region: Cytochrom_C; cl11414 1235461013854 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1235461013855 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461013856 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461013857 TAP-like protein; Region: Abhydrolase_4; pfam08386 1235461013858 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1235461013859 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461013860 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1235461013861 Predicted membrane protein [Function unknown]; Region: COG3619 1235461013862 Predicted membrane protein [Function unknown]; Region: COG3174 1235461013863 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1235461013864 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1235461013865 Ligand Binding Site [chemical binding]; other site 1235461013866 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461013867 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 1235461013868 tetramer interface [polypeptide binding]; other site 1235461013869 catalytic Zn binding site [ion binding]; other site 1235461013870 NADP binding site [chemical binding]; other site 1235461013871 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1235461013872 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1235461013873 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461013874 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1235461013875 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461013876 motif II; other site 1235461013877 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1235461013878 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1235461013879 BON domain; Region: BON; pfam04972 1235461013880 BON domain; Region: BON; pfam04972 1235461013881 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1235461013882 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1235461013883 Ligand Binding Site [chemical binding]; other site 1235461013884 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1235461013885 Ligand Binding Site [chemical binding]; other site 1235461013886 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1235461013887 CoA binding domain; Region: CoA_binding_2; pfam13380 1235461013888 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1235461013889 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1235461013890 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1235461013891 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461013892 Coenzyme A binding pocket [chemical binding]; other site 1235461013893 PAS domain; Region: PAS_9; pfam13426 1235461013894 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461013895 putative active site [active] 1235461013896 heme pocket [chemical binding]; other site 1235461013897 PAS domain S-box; Region: sensory_box; TIGR00229 1235461013898 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461013899 putative active site [active] 1235461013900 heme pocket [chemical binding]; other site 1235461013901 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461013902 dimer interface [polypeptide binding]; other site 1235461013903 phosphorylation site [posttranslational modification] 1235461013904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461013905 ATP binding site [chemical binding]; other site 1235461013906 G-X-G motif; other site 1235461013907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461013908 active site 1235461013909 phosphorylation site [posttranslational modification] 1235461013910 intermolecular recognition site; other site 1235461013911 dimerization interface [polypeptide binding]; other site 1235461013912 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461013913 ligand binding site [chemical binding]; other site 1235461013914 flexible hinge region; other site 1235461013915 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1235461013916 putative switch regulator; other site 1235461013917 non-specific DNA interactions [nucleotide binding]; other site 1235461013918 DNA binding site [nucleotide binding] 1235461013919 sequence specific DNA binding site [nucleotide binding]; other site 1235461013920 putative cAMP binding site [chemical binding]; other site 1235461013921 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461013922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461013923 active site 1235461013924 phosphorylation site [posttranslational modification] 1235461013925 intermolecular recognition site; other site 1235461013926 dimerization interface [polypeptide binding]; other site 1235461013927 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461013928 DNA binding site [nucleotide binding] 1235461013929 ornithine carbamoyltransferase; Validated; Region: PRK02102 1235461013930 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1235461013931 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1235461013932 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1235461013933 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461013934 Beta-Casp domain; Region: Beta-Casp; smart01027 1235461013935 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1235461013936 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1235461013937 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1235461013938 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1235461013939 protein binding site [polypeptide binding]; other site 1235461013940 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1235461013941 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 1235461013942 Peptidase family M50; Region: Peptidase_M50; pfam02163 1235461013943 active site 1235461013944 putative substrate binding region [chemical binding]; other site 1235461013945 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_26; cd04639 1235461013946 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461013947 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461013948 FtsX-like permease family; Region: FtsX; pfam02687 1235461013949 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1235461013950 FtsX-like permease family; Region: FtsX; pfam02687 1235461013951 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1235461013952 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1235461013953 Walker A/P-loop; other site 1235461013954 ATP binding site [chemical binding]; other site 1235461013955 Q-loop/lid; other site 1235461013956 ABC transporter signature motif; other site 1235461013957 Walker B; other site 1235461013958 D-loop; other site 1235461013959 H-loop/switch region; other site 1235461013960 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1235461013961 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1235461013962 putative dimer interface [polypeptide binding]; other site 1235461013963 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1235461013964 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461013965 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461013966 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461013967 cyclase homology domain; Region: CHD; cd07302 1235461013968 nucleotidyl binding site; other site 1235461013969 metal binding site [ion binding]; metal-binding site 1235461013970 dimer interface [polypeptide binding]; other site 1235461013971 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1235461013972 Ligand Binding Site [chemical binding]; other site 1235461013973 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461013974 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1235461013975 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1235461013976 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461013977 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1235461013978 FOG: CBS domain [General function prediction only]; Region: COG0517 1235461013979 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 1235461013980 putative phosphoketolase; Provisional; Region: PRK05261 1235461013981 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1235461013982 TPP-binding site; other site 1235461013983 XFP C-terminal domain; Region: XFP_C; pfam09363 1235461013984 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461013985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461013986 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461013987 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461013988 putative active site [active] 1235461013989 putative NTP binding site [chemical binding]; other site 1235461013990 putative nucleic acid binding site [nucleotide binding]; other site 1235461013991 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461013992 Homeodomain-like domain; Region: HTH_23; pfam13384 1235461013993 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461013994 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461013995 LTXXQ motif family protein; Region: LTXXQ; pfam07813 1235461013996 TspO/MBR family; Region: TspO_MBR; pfam03073 1235461013997 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1235461013998 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1235461013999 Fasciclin domain; Region: Fasciclin; pfam02469 1235461014000 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461014001 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461014002 non-specific DNA binding site [nucleotide binding]; other site 1235461014003 salt bridge; other site 1235461014004 sequence-specific DNA binding site [nucleotide binding]; other site 1235461014005 Cupin domain; Region: Cupin_2; pfam07883 1235461014006 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461014007 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461014008 ligand binding site [chemical binding]; other site 1235461014009 flexible hinge region; other site 1235461014010 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1235461014011 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461014012 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461014013 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1235461014014 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461014015 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461014016 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1235461014017 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461014018 dimerization interface [polypeptide binding]; other site 1235461014019 putative DNA binding site [nucleotide binding]; other site 1235461014020 putative Zn2+ binding site [ion binding]; other site 1235461014021 Predicted transporter component [General function prediction only]; Region: COG2391 1235461014022 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1235461014023 Predicted transporter component [General function prediction only]; Region: COG2391 1235461014024 Sulphur transport; Region: Sulf_transp; pfam04143 1235461014025 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1235461014026 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1235461014027 HWE histidine kinase; Region: HWE_HK; pfam07536 1235461014028 Transposase; Region: HTH_Tnp_1; pfam01527 1235461014029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461014030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461014031 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461014032 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1235461014033 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1235461014034 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461014035 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461014036 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461014037 Integrase core domain; Region: rve; pfam00665 1235461014038 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1235461014039 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1235461014040 DNA-binding interface [nucleotide binding]; DNA binding site 1235461014041 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461014042 Integrase core domain; Region: rve; pfam00665 1235461014043 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461014044 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461014045 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1235461014046 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461014047 catalytic residue [active] 1235461014048 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461014049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461014050 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461014051 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461014052 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461014053 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461014054 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461014055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461014056 Transposase; Region: HTH_Tnp_1; cl17663 1235461014057 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1235461014058 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461014059 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1235461014060 active site 1235461014061 phosphorylation site [posttranslational modification] 1235461014062 intermolecular recognition site; other site 1235461014063 dimerization interface [polypeptide binding]; other site 1235461014064 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461014065 DNA binding site [nucleotide binding] 1235461014066 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1235461014067 active site 1235461014068 NTP binding site [chemical binding]; other site 1235461014069 metal binding triad [ion binding]; metal-binding site 1235461014070 antibiotic binding site [chemical binding]; other site 1235461014071 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 1235461014072 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461014073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1235461014074 active site 1235461014075 phosphorylation site [posttranslational modification] 1235461014076 intermolecular recognition site; other site 1235461014077 dimerization interface [polypeptide binding]; other site 1235461014078 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461014079 DNA binding site [nucleotide binding] 1235461014080 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1235461014081 classical (c) SDRs; Region: SDR_c; cd05233 1235461014082 NAD(P) binding site [chemical binding]; other site 1235461014083 active site 1235461014084 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 1235461014085 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1235461014086 PYR/PP interface [polypeptide binding]; other site 1235461014087 dimer interface [polypeptide binding]; other site 1235461014088 TPP binding site [chemical binding]; other site 1235461014089 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1235461014090 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1235461014091 TPP-binding site [chemical binding]; other site 1235461014092 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1235461014093 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1235461014094 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461014095 catalytic residue [active] 1235461014096 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461014097 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461014098 DNA-binding site [nucleotide binding]; DNA binding site 1235461014099 FCD domain; Region: FCD; pfam07729 1235461014100 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461014101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461014102 Walker A/P-loop; other site 1235461014103 ATP binding site [chemical binding]; other site 1235461014104 Q-loop/lid; other site 1235461014105 ABC transporter signature motif; other site 1235461014106 Walker B; other site 1235461014107 D-loop; other site 1235461014108 H-loop/switch region; other site 1235461014109 TOBE domain; Region: TOBE_2; pfam08402 1235461014110 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1235461014111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461014112 dimer interface [polypeptide binding]; other site 1235461014113 conserved gate region; other site 1235461014114 putative PBP binding loops; other site 1235461014115 ABC-ATPase subunit interface; other site 1235461014116 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461014117 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461014118 dimer interface [polypeptide binding]; other site 1235461014119 conserved gate region; other site 1235461014120 putative PBP binding loops; other site 1235461014121 ABC-ATPase subunit interface; other site 1235461014122 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461014123 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461014124 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1235461014125 Sulfatase; Region: Sulfatase; pfam00884 1235461014126 Sulfatase; Region: Sulfatase; cl17466 1235461014127 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461014128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461014129 active site 1235461014130 phosphorylation site [posttranslational modification] 1235461014131 intermolecular recognition site; other site 1235461014132 dimerization interface [polypeptide binding]; other site 1235461014133 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461014134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461014135 active site 1235461014136 phosphorylation site [posttranslational modification] 1235461014137 intermolecular recognition site; other site 1235461014138 dimerization interface [polypeptide binding]; other site 1235461014139 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461014140 DNA binding residues [nucleotide binding] 1235461014141 dimerization interface [polypeptide binding]; other site 1235461014142 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461014143 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461014144 dimer interface [polypeptide binding]; other site 1235461014145 phosphorylation site [posttranslational modification] 1235461014146 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461014147 ATP binding site [chemical binding]; other site 1235461014148 Mg2+ binding site [ion binding]; other site 1235461014149 G-X-G motif; other site 1235461014150 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1235461014151 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1235461014152 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1235461014153 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461014154 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1235461014155 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1235461014156 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 1235461014157 MobA/MobL family; Region: MobA_MobL; pfam03389 1235461014158 AAA domain; Region: AAA_30; pfam13604 1235461014159 Family description; Region: UvrD_C_2; pfam13538 1235461014160 TraC-like protein; Region: TraC; pfam07820 1235461014161 Conjugal transfer protein TraD; Region: TraD; pfam06412 1235461014162 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 1235461014163 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 1235461014164 Walker A motif; other site 1235461014165 ATP binding site [chemical binding]; other site 1235461014166 Walker B motif; other site 1235461014167 Uncharacterized conserved protein [Function unknown]; Region: COG5489 1235461014168 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1235461014169 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 1235461014170 Toprim domain; Region: Toprim_3; pfam13362 1235461014171 Helicase_C-like; Region: Helicase_C_4; pfam13871 1235461014172 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 1235461014173 Antirestriction protein; Region: Antirestrict; pfam03230 1235461014174 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1235461014175 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1235461014176 putative active site [active] 1235461014177 putative PHP Thumb interface [polypeptide binding]; other site 1235461014178 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1235461014179 generic binding surface I; other site 1235461014180 generic binding surface II; other site 1235461014181 DNA Polymerase Y-family; Region: PolY_like; cd03468 1235461014182 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1235461014183 DNA binding site [nucleotide binding] 1235461014184 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1235461014185 Y-family of DNA polymerases; Region: PolY; cl12025 1235461014186 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1235461014187 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1235461014188 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1235461014189 glutaminase active site [active] 1235461014190 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1235461014191 dimer interface [polypeptide binding]; other site 1235461014192 active site 1235461014193 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1235461014194 dimer interface [polypeptide binding]; other site 1235461014195 active site 1235461014196 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461014197 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461014198 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1235461014199 Protein export membrane protein; Region: SecD_SecF; cl14618 1235461014200 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 1235461014201 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1235461014202 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461014203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461014204 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 1235461014205 putative substrate binding pocket [chemical binding]; other site 1235461014206 putative dimerization interface [polypeptide binding]; other site 1235461014207 Nodulation protein A (NodA); Region: NodA; pfam02474 1235461014208 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1235461014209 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1235461014210 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 1235461014211 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1235461014212 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1235461014213 DXD motif; other site 1235461014214 nodulation factor exporter subunit NodI; Provisional; Region: PRK13536 1235461014215 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1235461014216 Walker A/P-loop; other site 1235461014217 ATP binding site [chemical binding]; other site 1235461014218 Q-loop/lid; other site 1235461014219 ABC transporter signature motif; other site 1235461014220 Walker B; other site 1235461014221 D-loop; other site 1235461014222 H-loop/switch region; other site 1235461014223 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1235461014224 ABC-2 type transporter, NodJ family; Region: nodJ; TIGR01291 1235461014225 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461014226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461014227 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461014228 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1235461014229 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1235461014230 CysD dimerization site [polypeptide binding]; other site 1235461014231 G1 box; other site 1235461014232 putative GEF interaction site [polypeptide binding]; other site 1235461014233 GTP/Mg2+ binding site [chemical binding]; other site 1235461014234 Switch I region; other site 1235461014235 G2 box; other site 1235461014236 G3 box; other site 1235461014237 Switch II region; other site 1235461014238 G4 box; other site 1235461014239 G5 box; other site 1235461014240 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1235461014241 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1235461014242 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1235461014243 ligand-binding site [chemical binding]; other site 1235461014244 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1235461014245 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1235461014246 Active Sites [active] 1235461014247 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1235461014248 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1235461014249 NAD(P) binding site [chemical binding]; other site 1235461014250 homotetramer interface [polypeptide binding]; other site 1235461014251 homodimer interface [polypeptide binding]; other site 1235461014252 active site 1235461014253 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1235461014254 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1235461014255 dimer interface [polypeptide binding]; other site 1235461014256 active site 1235461014257 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1235461014258 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 1235461014259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461014260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461014261 The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold; Region: PBP2_SyrM; cd08467 1235461014262 putative substrate binding pocket [chemical binding]; other site 1235461014263 putative dimerization interface [polypeptide binding]; other site 1235461014264 Integrase core domain; Region: rve_3; cl15866 1235461014265 Integrase core domain; Region: rve; pfam00665 1235461014266 Transposase; Region: HTH_Tnp_1; pfam01527 1235461014267 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461014268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461014269 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 1235461014270 putative substrate binding pocket [chemical binding]; other site 1235461014271 putative dimerization interface [polypeptide binding]; other site 1235461014272 Exopolysaccharide production repressor; Region: SyrA; pfam11089 1235461014273 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1235461014274 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 1235461014275 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5420 1235461014276 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 1235461014277 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461014278 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461014279 putative active site [active] 1235461014280 putative NTP binding site [chemical binding]; other site 1235461014281 putative nucleic acid binding site [nucleotide binding]; other site 1235461014282 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461014283 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 1235461014284 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 1235461014285 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 1235461014286 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 1235461014287 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 1235461014288 MoFe protein beta/alpha subunit interactions; other site 1235461014289 Beta subunit P cluster binding residues; other site 1235461014290 MoFe protein beta subunit/Fe protein contacts; other site 1235461014291 MoFe protein dimer/ dimer interactions; other site 1235461014292 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 1235461014293 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 1235461014294 MoFe protein alpha/beta subunit interactions; other site 1235461014295 Alpha subunit P cluster binding residues; other site 1235461014296 FeMoco binding residues [chemical binding]; other site 1235461014297 MoFe protein alpha subunit/Fe protein contacts; other site 1235461014298 MoFe protein dimer/ dimer interactions; other site 1235461014299 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 1235461014300 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 1235461014301 Nucleotide-binding sites [chemical binding]; other site 1235461014302 Walker A motif; other site 1235461014303 Switch I region of nucleotide binding site; other site 1235461014304 Fe4S4 binding sites [ion binding]; other site 1235461014305 Switch II region of nucleotide binding site; other site 1235461014306 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1235461014307 Ligand binding site [chemical binding]; other site 1235461014308 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1235461014309 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1235461014310 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1235461014311 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1235461014312 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1235461014313 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461014314 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1235461014315 Nif-specific regulatory protein; Region: nifA; TIGR01817 1235461014316 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1235461014317 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461014318 Walker A motif; other site 1235461014319 ATP binding site [chemical binding]; other site 1235461014320 Walker B motif; other site 1235461014321 arginine finger; other site 1235461014322 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1235461014323 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 1235461014324 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461014325 FeS/SAM binding site; other site 1235461014326 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 1235461014327 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1235461014328 Nitrogen fixation protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NifU; COG5554 1235461014329 Transposase; Region: HTH_Tnp_1; cl17663 1235461014330 succinic semialdehyde dehydrogenase; Region: PLN02278 1235461014331 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1235461014332 tetramerization interface [polypeptide binding]; other site 1235461014333 NAD(P) binding site [chemical binding]; other site 1235461014334 catalytic residues [active] 1235461014335 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461014336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461014337 Walker A/P-loop; other site 1235461014338 ATP binding site [chemical binding]; other site 1235461014339 Q-loop/lid; other site 1235461014340 ABC transporter signature motif; other site 1235461014341 Walker B; other site 1235461014342 D-loop; other site 1235461014343 H-loop/switch region; other site 1235461014344 TOBE domain; Region: TOBE_2; pfam08402 1235461014345 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461014346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461014347 putative PBP binding loops; other site 1235461014348 ABC-ATPase subunit interface; other site 1235461014349 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 1235461014350 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461014351 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461014352 NIPSNAP; Region: NIPSNAP; pfam07978 1235461014353 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461014354 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1235461014355 NAD(P) binding site [chemical binding]; other site 1235461014356 catalytic residues [active] 1235461014357 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1235461014358 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1235461014359 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1235461014360 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1235461014361 Amino acid synthesis; Region: AA_synth; pfam06684 1235461014362 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461014363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461014364 DNA-binding site [nucleotide binding]; DNA binding site 1235461014365 FCD domain; Region: FCD; pfam07729 1235461014366 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1235461014367 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461014368 S-adenosylmethionine binding site [chemical binding]; other site 1235461014369 maltose O-acetyltransferase; Provisional; Region: PRK10092 1235461014370 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1235461014371 active site 1235461014372 substrate binding site [chemical binding]; other site 1235461014373 trimer interface [polypeptide binding]; other site 1235461014374 CoA binding site [chemical binding]; other site 1235461014375 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1235461014376 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461014377 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1235461014378 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461014379 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1235461014380 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1235461014381 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1235461014382 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1235461014383 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1235461014384 Low-spin heme binding site [chemical binding]; other site 1235461014385 Putative water exit pathway; other site 1235461014386 Binuclear center (active site) [active] 1235461014387 Putative proton exit pathway; other site 1235461014388 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 1235461014389 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461014390 ligand binding site [chemical binding]; other site 1235461014391 flexible hinge region; other site 1235461014392 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1235461014393 putative switch regulator; other site 1235461014394 non-specific DNA interactions [nucleotide binding]; other site 1235461014395 DNA binding site [nucleotide binding] 1235461014396 sequence specific DNA binding site [nucleotide binding]; other site 1235461014397 putative cAMP binding site [chemical binding]; other site 1235461014398 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1235461014399 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461014400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1235461014401 dimerization interface [polypeptide binding]; other site 1235461014402 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 1235461014403 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1235461014404 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461014405 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461014406 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 1235461014407 putative substrate binding pocket [chemical binding]; other site 1235461014408 putative dimerization interface [polypeptide binding]; other site 1235461014409 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1235461014410 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1235461014411 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1235461014412 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1235461014413 FAD binding pocket [chemical binding]; other site 1235461014414 FAD binding motif [chemical binding]; other site 1235461014415 phosphate binding motif [ion binding]; other site 1235461014416 beta-alpha-beta structure motif; other site 1235461014417 NAD binding pocket [chemical binding]; other site 1235461014418 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461014419 catalytic loop [active] 1235461014420 iron binding site [ion binding]; other site 1235461014421 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1235461014422 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1235461014423 [2Fe-2S] cluster binding site [ion binding]; other site 1235461014424 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1235461014425 putative alpha subunit interface [polypeptide binding]; other site 1235461014426 putative active site [active] 1235461014427 putative substrate binding site [chemical binding]; other site 1235461014428 Fe binding site [ion binding]; other site 1235461014429 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1235461014430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461014431 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461014432 dimerization interface [polypeptide binding]; other site 1235461014433 Predicted transcriptional regulator [Transcription]; Region: COG4957 1235461014434 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1235461014435 oligomerisation interface [polypeptide binding]; other site 1235461014436 mobile loop; other site 1235461014437 roof hairpin; other site 1235461014438 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1235461014439 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1235461014440 ring oligomerisation interface [polypeptide binding]; other site 1235461014441 ATP/Mg binding site [chemical binding]; other site 1235461014442 stacking interactions; other site 1235461014443 hinge regions; other site 1235461014444 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461014445 DNA-binding site [nucleotide binding]; DNA binding site 1235461014446 RNA-binding motif; other site 1235461014447 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1235461014448 Uncharacterized conserved protein [Function unknown]; Region: COG5556 1235461014449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461014450 Coenzyme A binding pocket [chemical binding]; other site 1235461014451 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461014452 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461014453 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461014454 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461014455 putative active site [active] 1235461014456 putative NTP binding site [chemical binding]; other site 1235461014457 putative nucleic acid binding site [nucleotide binding]; other site 1235461014458 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461014459 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461014460 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461014461 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461014462 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461014463 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 1235461014464 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461014465 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461014466 Transposase; Region: HTH_Tnp_1; pfam01527 1235461014467 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461014468 classical (c) SDRs; Region: SDR_c; cd05233 1235461014469 NAD(P) binding site [chemical binding]; other site 1235461014470 active site 1235461014471 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1235461014472 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1235461014473 Bacterial transcriptional regulator; Region: IclR; pfam01614 1235461014474 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1235461014475 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461014476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461014477 NAD(P) binding site [chemical binding]; other site 1235461014478 active site 1235461014479 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461014480 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461014481 Walker A/P-loop; other site 1235461014482 ATP binding site [chemical binding]; other site 1235461014483 Q-loop/lid; other site 1235461014484 ABC transporter signature motif; other site 1235461014485 Walker B; other site 1235461014486 D-loop; other site 1235461014487 H-loop/switch region; other site 1235461014488 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461014489 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461014490 dimer interface [polypeptide binding]; other site 1235461014491 conserved gate region; other site 1235461014492 putative PBP binding loops; other site 1235461014493 ABC-ATPase subunit interface; other site 1235461014494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461014495 dimer interface [polypeptide binding]; other site 1235461014496 conserved gate region; other site 1235461014497 putative PBP binding loops; other site 1235461014498 ABC-ATPase subunit interface; other site 1235461014499 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461014500 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461014501 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1235461014502 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1235461014503 active site pocket [active] 1235461014504 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461014505 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1235461014506 inhibitor site; inhibition site 1235461014507 active site 1235461014508 dimer interface [polypeptide binding]; other site 1235461014509 catalytic residue [active] 1235461014510 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1235461014511 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1235461014512 Ion channel; Region: Ion_trans_2; pfam07885 1235461014513 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1235461014514 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1235461014515 putative substrate binding site [chemical binding]; other site 1235461014516 nucleotide binding site [chemical binding]; other site 1235461014517 nucleotide binding site [chemical binding]; other site 1235461014518 homodimer interface [polypeptide binding]; other site 1235461014519 ornithine carbamoyltransferase; Validated; Region: PRK02102 1235461014520 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1235461014521 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1235461014522 arginine deiminase; Provisional; Region: PRK01388 1235461014523 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1235461014524 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1235461014525 arginine:agmatin antiporter; Provisional; Region: PRK10644 1235461014526 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: COG3965 1235461014527 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1235461014528 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1235461014529 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1235461014530 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461014531 catalytic residue [active] 1235461014532 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1235461014533 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1235461014534 ornithine decarboxylase; Provisional; Region: PRK13578 1235461014535 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1235461014536 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461014537 catalytic residue [active] 1235461014538 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1235461014539 putrescine transporter; Provisional; Region: potE; PRK10655 1235461014540 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1235461014541 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1235461014542 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461014543 substrate binding pocket [chemical binding]; other site 1235461014544 membrane-bound complex binding site; other site 1235461014545 hinge residues; other site 1235461014546 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1235461014547 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1235461014548 CCC1-related family of proteins; Region: CCC1_like; cl00278 1235461014549 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1235461014550 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1235461014551 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461014552 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1235461014553 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461014554 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1235461014555 TPR motif; other site 1235461014556 binding surface 1235461014557 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 1235461014558 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461014559 ligand binding site [chemical binding]; other site 1235461014560 flexible hinge region; other site 1235461014561 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1235461014562 putative switch regulator; other site 1235461014563 non-specific DNA interactions [nucleotide binding]; other site 1235461014564 DNA binding site [nucleotide binding] 1235461014565 sequence specific DNA binding site [nucleotide binding]; other site 1235461014566 putative cAMP binding site [chemical binding]; other site 1235461014567 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1235461014568 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1235461014569 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 1235461014570 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1235461014571 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1235461014572 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461014573 DNA-binding interface [nucleotide binding]; DNA binding site 1235461014574 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 1235461014575 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1235461014576 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1235461014577 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1235461014578 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461014579 dimerization interface [polypeptide binding]; other site 1235461014580 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1235461014581 cyclase homology domain; Region: CHD; cd07302 1235461014582 nucleotidyl binding site; other site 1235461014583 metal binding site [ion binding]; metal-binding site 1235461014584 dimer interface [polypeptide binding]; other site 1235461014585 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1235461014586 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461014587 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461014588 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1235461014589 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1235461014590 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 1235461014591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1235461014592 Putative glucoamylase; Region: Glycoamylase; pfam10091 1235461014593 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1235461014594 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1235461014595 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1235461014596 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1235461014597 catalytic core [active] 1235461014598 putative phosphoketolase; Provisional; Region: PRK05261 1235461014599 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1235461014600 TPP-binding site; other site 1235461014601 XFP C-terminal domain; Region: XFP_C; pfam09363 1235461014602 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1235461014603 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1235461014604 NAD binding site [chemical binding]; other site 1235461014605 substrate binding site [chemical binding]; other site 1235461014606 catalytic Zn binding site [ion binding]; other site 1235461014607 tetramer interface [polypeptide binding]; other site 1235461014608 structural Zn binding site [ion binding]; other site 1235461014609 FOG: CBS domain [General function prediction only]; Region: COG0517 1235461014610 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 1235461014611 BON domain; Region: BON; pfam04972 1235461014612 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1235461014613 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1235461014614 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1235461014615 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1235461014616 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1235461014617 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1235461014618 NAD binding site [chemical binding]; other site 1235461014619 homotetramer interface [polypeptide binding]; other site 1235461014620 homodimer interface [polypeptide binding]; other site 1235461014621 substrate binding site [chemical binding]; other site 1235461014622 active site 1235461014623 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1235461014624 propionate/acetate kinase; Provisional; Region: PRK12379 1235461014625 phosphate acetyltransferase; Provisional; Region: PRK11890 1235461014626 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1235461014627 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1235461014628 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 1235461014629 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1235461014630 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1235461014631 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1235461014632 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461014633 Transposase domain (DUF772); Region: DUF772; pfam05598 1235461014634 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461014635 Transposase domain (DUF772); Region: DUF772; pfam05598 1235461014636 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461014637 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461014638 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461014639 putative active site [active] 1235461014640 putative NTP binding site [chemical binding]; other site 1235461014641 putative nucleic acid binding site [nucleotide binding]; other site 1235461014642 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461014643 aquaporin Z; Provisional; Region: PRK05420 1235461014644 amphipathic channel; other site 1235461014645 Asn-Pro-Ala signature motifs; other site 1235461014646 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1235461014647 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1235461014648 ligand binding site [chemical binding]; other site 1235461014649 Predicted periplasmic protein [Function unknown]; Region: COG3900 1235461014650 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 1235461014651 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1235461014652 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461014653 metal-binding site [ion binding] 1235461014654 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461014655 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461014656 motif II; other site 1235461014657 Predicted integral membrane protein [Function unknown]; Region: COG5473 1235461014658 FixH; Region: FixH; pfam05751 1235461014659 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1235461014660 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461014661 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461014662 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1235461014663 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1235461014664 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1235461014665 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1235461014666 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1235461014667 Low-spin heme binding site [chemical binding]; other site 1235461014668 Putative water exit pathway; other site 1235461014669 Binuclear center (active site) [active] 1235461014670 Putative proton exit pathway; other site 1235461014671 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461014672 MULE transposase domain; Region: MULE; pfam10551 1235461014673 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461014674 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461014675 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1235461014676 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461014677 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461014678 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 1235461014679 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1235461014680 Predicted periplasmic protein [Function unknown]; Region: COG3900 1235461014681 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461014682 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1235461014683 TPR motif; other site 1235461014684 binding surface 1235461014685 TPR repeat; Region: TPR_11; pfam13414 1235461014686 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461014687 binding surface 1235461014688 TPR motif; other site 1235461014689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1235461014690 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461014691 non-specific DNA binding site [nucleotide binding]; other site 1235461014692 salt bridge; other site 1235461014693 sequence-specific DNA binding site [nucleotide binding]; other site 1235461014694 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1235461014695 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1235461014696 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1235461014697 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1235461014698 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1235461014699 NMT1-like family; Region: NMT1_2; pfam13379 1235461014700 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1235461014701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461014702 putative PBP binding loops; other site 1235461014703 dimer interface [polypeptide binding]; other site 1235461014704 ABC-ATPase subunit interface; other site 1235461014705 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1235461014706 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1235461014707 Walker A/P-loop; other site 1235461014708 ATP binding site [chemical binding]; other site 1235461014709 Q-loop/lid; other site 1235461014710 ABC transporter signature motif; other site 1235461014711 Walker B; other site 1235461014712 D-loop; other site 1235461014713 H-loop/switch region; other site 1235461014714 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461014715 dimerization interface [polypeptide binding]; other site 1235461014716 PAS fold; Region: PAS_7; pfam12860 1235461014717 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461014718 cyclase homology domain; Region: CHD; cd07302 1235461014719 nucleotidyl binding site; other site 1235461014720 metal binding site [ion binding]; metal-binding site 1235461014721 dimer interface [polypeptide binding]; other site 1235461014722 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1235461014723 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1235461014724 dimerization interface [polypeptide binding]; other site 1235461014725 ligand binding site [chemical binding]; other site 1235461014726 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 1235461014727 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1235461014728 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1235461014729 Walker A motif; other site 1235461014730 Walker A motif; other site 1235461014731 ATP binding site [chemical binding]; other site 1235461014732 Walker B motif; other site 1235461014733 KaiC; Region: KaiC; pfam06745 1235461014734 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 1235461014735 Walker A motif; other site 1235461014736 ATP binding site [chemical binding]; other site 1235461014737 Walker B motif; other site 1235461014738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1235461014739 HWE histidine kinase; Region: HWE_HK; pfam07536 1235461014740 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461014741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461014742 active site 1235461014743 phosphorylation site [posttranslational modification] 1235461014744 intermolecular recognition site; other site 1235461014745 dimerization interface [polypeptide binding]; other site 1235461014746 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 1235461014747 peptide binding site [polypeptide binding]; other site 1235461014748 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 1235461014749 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1235461014750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461014751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461014752 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461014753 putative effector binding pocket; other site 1235461014754 dimerization interface [polypeptide binding]; other site 1235461014755 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 1235461014756 NmrA-like family; Region: NmrA; pfam05368 1235461014757 NADP binding site [chemical binding]; other site 1235461014758 active site 1235461014759 regulatory binding site [polypeptide binding]; other site 1235461014760 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1235461014761 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461014762 Transposase domain (DUF772); Region: DUF772; pfam05598 1235461014763 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461014764 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461014765 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461014766 putative active site [active] 1235461014767 putative NTP binding site [chemical binding]; other site 1235461014768 putative nucleic acid binding site [nucleotide binding]; other site 1235461014769 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461014770 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1235461014771 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1235461014772 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1235461014773 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1235461014774 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1235461014775 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1235461014776 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1235461014777 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 1235461014778 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 1235461014779 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1235461014780 DXD motif; other site 1235461014781 PilZ domain; Region: PilZ; pfam07238 1235461014782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461014783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461014784 metal binding site [ion binding]; metal-binding site 1235461014785 active site 1235461014786 I-site; other site 1235461014787 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461014788 Uncharacterized conserved protein [Function unknown]; Region: COG5439 1235461014789 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1235461014790 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461014791 S-adenosylmethionine binding site [chemical binding]; other site 1235461014792 Cache domain; Region: Cache_1; pfam02743 1235461014793 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461014794 dimerization interface [polypeptide binding]; other site 1235461014795 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1235461014796 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1235461014797 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1235461014798 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 1235461014799 gating phenylalanine in ion channel; other site 1235461014800 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461014801 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1235461014802 conserved cys residue [active] 1235461014803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461014804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461014805 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 1235461014806 Domain of unknown function (DUF4206); Region: DUF4206; pfam13901 1235461014807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461014808 active site 1235461014809 phosphorylation site [posttranslational modification] 1235461014810 intermolecular recognition site; other site 1235461014811 dimerization interface [polypeptide binding]; other site 1235461014812 putative integral membrane protein TIGR02587; Region: TIGR02587 1235461014813 TIGR02588 family protein; Region: TIGR02588 1235461014814 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1235461014815 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 1235461014816 DNA binding residues [nucleotide binding] 1235461014817 dimer interface [polypeptide binding]; other site 1235461014818 mercury binding site [ion binding]; other site 1235461014819 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1235461014820 Methylamine utilisation protein MauE; Region: MauE; pfam07291 1235461014821 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461014822 S-adenosylmethionine binding site [chemical binding]; other site 1235461014823 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1235461014824 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1235461014825 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1235461014826 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1235461014827 type III secretion system protein YscR; Provisional; Region: PRK12797 1235461014828 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1235461014829 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1235461014830 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 1235461014831 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1235461014832 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1235461014833 Walker A motif/ATP binding site; other site 1235461014834 Walker B motif; other site 1235461014835 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1235461014836 Flagellar assembly protein FliH; Region: FliH; pfam02108 1235461014837 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1235461014838 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1235461014839 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 1235461014840 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1235461014841 FHIPEP family; Region: FHIPEP; pfam00771 1235461014842 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1235461014843 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1235461014844 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1235461014845 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461014846 TPR repeat; Region: TPR_11; pfam13414 1235461014847 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461014848 TPR motif; other site 1235461014849 binding surface 1235461014850 TPR repeat; Region: TPR_11; pfam13414 1235461014851 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 1235461014852 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1235461014853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461014854 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461014855 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 1235461014856 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1235461014857 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1235461014858 conserved cys residue [active] 1235461014859 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461014860 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1235461014861 putative ligand binding site [chemical binding]; other site 1235461014862 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461014863 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461014864 TM-ABC transporter signature motif; other site 1235461014865 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461014866 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461014867 Walker A/P-loop; other site 1235461014868 ATP binding site [chemical binding]; other site 1235461014869 Q-loop/lid; other site 1235461014870 ABC transporter signature motif; other site 1235461014871 Walker B; other site 1235461014872 D-loop; other site 1235461014873 H-loop/switch region; other site 1235461014874 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461014875 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461014876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461014877 DNA-binding site [nucleotide binding]; DNA binding site 1235461014878 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461014879 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1235461014880 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1235461014881 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1235461014882 active site 1235461014883 NAD binding site [chemical binding]; other site 1235461014884 metal binding site [ion binding]; metal-binding site 1235461014885 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461014886 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1235461014887 tetramerization interface [polypeptide binding]; other site 1235461014888 NAD(P) binding site [chemical binding]; other site 1235461014889 catalytic residues [active] 1235461014890 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1235461014891 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1235461014892 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 1235461014893 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1235461014894 FMN binding site [chemical binding]; other site 1235461014895 active site 1235461014896 homodimer interface [polypeptide binding]; other site 1235461014897 putative catalytic residue [active] 1235461014898 4Fe-4S cluster binding site [ion binding]; other site 1235461014899 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461014900 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 1235461014901 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1235461014902 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1235461014903 active site 1235461014904 catalytic site [active] 1235461014905 substrate binding site [chemical binding]; other site 1235461014906 Uncharacterized conserved protein [Function unknown]; Region: COG5482 1235461014907 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461014908 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1235461014909 DctM-like transporters; Region: DctM; pfam06808 1235461014910 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461014911 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461014912 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1235461014913 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1235461014914 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461014915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461014916 DNA-binding site [nucleotide binding]; DNA binding site 1235461014917 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461014918 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1235461014919 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461014920 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461014921 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1235461014922 putative NAD(P) binding site [chemical binding]; other site 1235461014923 active site 1235461014924 putative substrate binding site [chemical binding]; other site 1235461014925 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1235461014926 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1235461014927 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 1235461014928 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1235461014929 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1235461014930 active site 1235461014931 homotetramer interface [polypeptide binding]; other site 1235461014932 Uncharacterized conserved protein, YhbC family [Function unknown]; Region: COG0782 1235461014933 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1235461014934 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1235461014935 glutamate dehydrogenase; Provisional; Region: PRK09414 1235461014936 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1235461014937 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1235461014938 NAD(P) binding site [chemical binding]; other site 1235461014939 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1235461014940 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1235461014941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461014942 putative substrate translocation pore; other site 1235461014943 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461014944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461014945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461014946 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461014947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461014948 DNA-binding site [nucleotide binding]; DNA binding site 1235461014949 FCD domain; Region: FCD; pfam07729 1235461014950 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461014951 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1235461014952 NAD(P) binding site [chemical binding]; other site 1235461014953 catalytic residues [active] 1235461014954 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1235461014955 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461014956 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461014957 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461014958 TM-ABC transporter signature motif; other site 1235461014959 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461014960 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461014961 Walker A/P-loop; other site 1235461014962 ATP binding site [chemical binding]; other site 1235461014963 Q-loop/lid; other site 1235461014964 ABC transporter signature motif; other site 1235461014965 Walker B; other site 1235461014966 D-loop; other site 1235461014967 H-loop/switch region; other site 1235461014968 5-keto 4-deoxyuronate isomerase [Carbohydrate transport and metabolism]; Region: KduI; COG3717 1235461014969 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461014970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461014971 active site 1235461014972 phosphorylation site [posttranslational modification] 1235461014973 intermolecular recognition site; other site 1235461014974 dimerization interface [polypeptide binding]; other site 1235461014975 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1235461014976 DNA binding residues [nucleotide binding] 1235461014977 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1235461014978 Histidine kinase; Region: HisKA_3; pfam07730 1235461014979 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461014980 ATP binding site [chemical binding]; other site 1235461014981 Mg2+ binding site [ion binding]; other site 1235461014982 G-X-G motif; other site 1235461014983 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461014984 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 1235461014985 putative ligand binding site [chemical binding]; other site 1235461014986 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461014987 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461014988 Walker A/P-loop; other site 1235461014989 ATP binding site [chemical binding]; other site 1235461014990 Q-loop/lid; other site 1235461014991 ABC transporter signature motif; other site 1235461014992 Walker B; other site 1235461014993 D-loop; other site 1235461014994 H-loop/switch region; other site 1235461014995 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461014996 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461014997 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461014998 TM-ABC transporter signature motif; other site 1235461014999 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461015000 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461015001 TM-ABC transporter signature motif; other site 1235461015002 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1235461015003 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461015004 dimerization interface [polypeptide binding]; other site 1235461015005 putative DNA binding site [nucleotide binding]; other site 1235461015006 putative Zn2+ binding site [ion binding]; other site 1235461015007 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 1235461015008 putative hydrophobic ligand binding site [chemical binding]; other site 1235461015009 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461015010 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461015011 short chain dehydrogenase; Provisional; Region: PRK06701 1235461015012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461015013 NAD(P) binding site [chemical binding]; other site 1235461015014 active site 1235461015015 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461015016 putative substrate translocation pore; other site 1235461015017 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461015018 DNA-binding site [nucleotide binding]; DNA binding site 1235461015019 RNA-binding motif; other site 1235461015020 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1235461015021 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461015022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461015023 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461015024 dimerization interface [polypeptide binding]; other site 1235461015025 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461015026 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461015027 cyclase homology domain; Region: CHD; cd07302 1235461015028 nucleotidyl binding site; other site 1235461015029 metal binding site [ion binding]; metal-binding site 1235461015030 dimer interface [polypeptide binding]; other site 1235461015031 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461015032 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461015033 binding surface 1235461015034 TPR motif; other site 1235461015035 GYD domain; Region: GYD; pfam08734 1235461015036 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1235461015037 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1235461015038 Uncharacterized conserved protein [Function unknown]; Region: COG2326 1235461015039 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1235461015040 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1235461015041 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461015042 S-adenosylmethionine binding site [chemical binding]; other site 1235461015043 hypothetical protein; Provisional; Region: PRK08317 1235461015044 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461015045 S-adenosylmethionine binding site [chemical binding]; other site 1235461015046 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461015047 binding surface 1235461015048 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461015049 TPR motif; other site 1235461015050 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1235461015051 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1235461015052 BON domain; Region: BON; pfam04972 1235461015053 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1235461015054 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461015055 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461015056 DNA-binding site [nucleotide binding]; DNA binding site 1235461015057 FCD domain; Region: FCD; pfam07729 1235461015058 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461015059 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1235461015060 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461015061 DctM-like transporters; Region: DctM; pfam06808 1235461015062 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461015063 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 1235461015064 malonyl-CoA synthase; Validated; Region: PRK07514 1235461015065 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 1235461015066 acyl-activating enzyme (AAE) consensus motif; other site 1235461015067 active site 1235461015068 AMP binding site [chemical binding]; other site 1235461015069 CoA binding site [chemical binding]; other site 1235461015070 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1235461015071 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1235461015072 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1235461015073 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1235461015074 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461015075 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1235461015076 DNA binding residues [nucleotide binding] 1235461015077 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 1235461015078 active site 1235461015079 catalytic triad [active] 1235461015080 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1235461015081 dimer interface [polypeptide binding]; other site 1235461015082 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 1235461015083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461015084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461015085 metal binding site [ion binding]; metal-binding site 1235461015086 active site 1235461015087 I-site; other site 1235461015088 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461015089 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1235461015090 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1235461015091 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 1235461015092 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1235461015093 putative di-iron ligands [ion binding]; other site 1235461015094 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1235461015095 DNA-binding site [nucleotide binding]; DNA binding site 1235461015096 RNA-binding motif; other site 1235461015097 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1235461015098 oligomerisation interface [polypeptide binding]; other site 1235461015099 mobile loop; other site 1235461015100 roof hairpin; other site 1235461015101 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 1235461015102 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1235461015103 ring oligomerisation interface [polypeptide binding]; other site 1235461015104 ATP/Mg binding site [chemical binding]; other site 1235461015105 stacking interactions; other site 1235461015106 hinge regions; other site 1235461015107 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461015108 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1235461015109 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1235461015110 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1235461015111 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1235461015112 HSP70 interaction site [polypeptide binding]; other site 1235461015113 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1235461015114 substrate binding site [polypeptide binding]; other site 1235461015115 dimer interface [polypeptide binding]; other site 1235461015116 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461015117 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461015118 metal binding site [ion binding]; metal-binding site 1235461015119 active site 1235461015120 I-site; other site 1235461015121 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461015122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461015123 active site 1235461015124 phosphorylation site [posttranslational modification] 1235461015125 intermolecular recognition site; other site 1235461015126 dimerization interface [polypeptide binding]; other site 1235461015127 PAS domain; Region: PAS_9; pfam13426 1235461015128 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461015129 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461015130 putative active site [active] 1235461015131 heme pocket [chemical binding]; other site 1235461015132 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461015133 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1235461015134 putative active site [active] 1235461015135 heme pocket [chemical binding]; other site 1235461015136 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461015137 putative active site [active] 1235461015138 heme pocket [chemical binding]; other site 1235461015139 PAS domain S-box; Region: sensory_box; TIGR00229 1235461015140 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461015141 putative active site [active] 1235461015142 heme pocket [chemical binding]; other site 1235461015143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1235461015144 HWE histidine kinase; Region: HWE_HK; pfam07536 1235461015145 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461015146 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1235461015147 oligomeric interface; other site 1235461015148 putative active site [active] 1235461015149 homodimer interface [polypeptide binding]; other site 1235461015150 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1235461015151 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1235461015152 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461015153 Walker A/P-loop; other site 1235461015154 ATP binding site [chemical binding]; other site 1235461015155 Q-loop/lid; other site 1235461015156 ABC transporter signature motif; other site 1235461015157 Walker B; other site 1235461015158 D-loop; other site 1235461015159 H-loop/switch region; other site 1235461015160 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461015161 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461015162 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1235461015163 ABC transporter signature motif; other site 1235461015164 Walker B; other site 1235461015165 D-loop; other site 1235461015166 H-loop/switch region; other site 1235461015167 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461015168 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1235461015169 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461015170 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1235461015171 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1235461015172 active site 1235461015173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461015174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461015175 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1235461015176 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1235461015177 homodimer interface [polypeptide binding]; other site 1235461015178 homotetramer interface [polypeptide binding]; other site 1235461015179 active site pocket [active] 1235461015180 cleavage site 1235461015181 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1235461015182 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1235461015183 homodimer interface [polypeptide binding]; other site 1235461015184 substrate-cofactor binding pocket; other site 1235461015185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461015186 catalytic residue [active] 1235461015187 BA14K-like protein; Region: BA14K; pfam07886 1235461015188 BA14K-like protein; Region: BA14K; pfam07886 1235461015189 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 1235461015190 homotrimer interaction site [polypeptide binding]; other site 1235461015191 putative active site [active] 1235461015192 EthD domain; Region: EthD; cl17553 1235461015193 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1235461015194 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1235461015195 putative ligand binding site [chemical binding]; other site 1235461015196 NAD binding site [chemical binding]; other site 1235461015197 catalytic site [active] 1235461015198 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461015199 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1235461015200 Walker A/P-loop; other site 1235461015201 ATP binding site [chemical binding]; other site 1235461015202 Q-loop/lid; other site 1235461015203 ABC transporter signature motif; other site 1235461015204 Walker B; other site 1235461015205 D-loop; other site 1235461015206 H-loop/switch region; other site 1235461015207 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461015208 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461015209 substrate binding pocket [chemical binding]; other site 1235461015210 membrane-bound complex binding site; other site 1235461015211 hinge residues; other site 1235461015212 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461015213 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015214 dimer interface [polypeptide binding]; other site 1235461015215 conserved gate region; other site 1235461015216 putative PBP binding loops; other site 1235461015217 ABC-ATPase subunit interface; other site 1235461015218 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461015219 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015220 dimer interface [polypeptide binding]; other site 1235461015221 conserved gate region; other site 1235461015222 putative PBP binding loops; other site 1235461015223 ABC-ATPase subunit interface; other site 1235461015224 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1235461015225 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 1235461015226 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1235461015227 putative dimerization interface [polypeptide binding]; other site 1235461015228 putative ligand binding site [chemical binding]; other site 1235461015229 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1235461015230 active site 1235461015231 catalytic residues [active] 1235461015232 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1235461015233 classical (c) SDRs; Region: SDR_c; cd05233 1235461015234 NAD(P) binding site [chemical binding]; other site 1235461015235 active site 1235461015236 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1235461015237 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461015238 Walker A/P-loop; other site 1235461015239 ATP binding site [chemical binding]; other site 1235461015240 Q-loop/lid; other site 1235461015241 ABC transporter signature motif; other site 1235461015242 Walker B; other site 1235461015243 D-loop; other site 1235461015244 H-loop/switch region; other site 1235461015245 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461015246 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461015247 TM-ABC transporter signature motif; other site 1235461015248 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461015249 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1235461015250 putative ligand binding site [chemical binding]; other site 1235461015251 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461015252 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461015253 DNA-binding site [nucleotide binding]; DNA binding site 1235461015254 FCD domain; Region: FCD; pfam07729 1235461015255 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1235461015256 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1235461015257 active site pocket [active] 1235461015258 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461015259 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461015260 DNA-binding site [nucleotide binding]; DNA binding site 1235461015261 FCD domain; Region: FCD; pfam07729 1235461015262 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461015263 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461015264 DNA-binding site [nucleotide binding]; DNA binding site 1235461015265 FCD domain; Region: FCD; pfam07729 1235461015266 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1235461015267 aldose dehydrogenase; Validated; Region: PRK06398 1235461015268 classical (c) SDRs; Region: SDR_c; cd05233 1235461015269 NAD(P) binding site [chemical binding]; other site 1235461015270 active site 1235461015271 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1235461015272 dimerization interface [polypeptide binding]; other site 1235461015273 putative active cleft [active] 1235461015274 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1235461015275 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1235461015276 metal binding site [ion binding]; metal-binding site 1235461015277 substrate binding pocket [chemical binding]; other site 1235461015278 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1235461015279 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1235461015280 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 1235461015281 active site 1235461015282 zinc binding site [ion binding]; other site 1235461015283 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 1235461015284 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1235461015285 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461015286 putative NAD(P) binding site [chemical binding]; other site 1235461015287 transcriptional regulator; Provisional; Region: PRK10632 1235461015288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461015289 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1235461015290 putative effector binding pocket; other site 1235461015291 putative dimerization interface [polypeptide binding]; other site 1235461015292 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1235461015293 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461015294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461015295 Walker A/P-loop; other site 1235461015296 ATP binding site [chemical binding]; other site 1235461015297 Q-loop/lid; other site 1235461015298 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461015299 ABC transporter signature motif; other site 1235461015300 Walker B; other site 1235461015301 D-loop; other site 1235461015302 ABC transporter; Region: ABC_tran_2; pfam12848 1235461015303 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1235461015304 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 1235461015305 active site 1235461015306 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461015307 selenophosphate synthetase; Provisional; Region: PRK00943 1235461015308 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1235461015309 dimerization interface [polypeptide binding]; other site 1235461015310 putative ATP binding site [chemical binding]; other site 1235461015311 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1235461015312 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1235461015313 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461015314 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461015315 active site 1235461015316 phosphorylation site [posttranslational modification] 1235461015317 intermolecular recognition site; other site 1235461015318 dimerization interface [polypeptide binding]; other site 1235461015319 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1235461015320 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 1235461015321 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1235461015322 G1 box; other site 1235461015323 putative GEF interaction site [polypeptide binding]; other site 1235461015324 GTP/Mg2+ binding site [chemical binding]; other site 1235461015325 Switch I region; other site 1235461015326 G2 box; other site 1235461015327 G3 box; other site 1235461015328 Switch II region; other site 1235461015329 G4 box; other site 1235461015330 G5 box; other site 1235461015331 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1235461015332 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1235461015333 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1235461015334 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1235461015335 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1235461015336 Sel1-like repeats; Region: SEL1; smart00671 1235461015337 Sel1-like repeats; Region: SEL1; smart00671 1235461015338 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 1235461015339 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1235461015340 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1235461015341 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461015342 catalytic residue [active] 1235461015343 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 1235461015344 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1235461015345 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1235461015346 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1235461015347 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1235461015348 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1235461015349 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1235461015350 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1235461015351 molybdopterin cofactor binding site; other site 1235461015352 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1235461015353 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1235461015354 molybdopterin cofactor binding site; other site 1235461015355 Selenocysteine insertion sequence 3; C770_GR4pC1446 1235461015356 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1235461015357 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1235461015358 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461015359 P-loop; other site 1235461015360 Magnesium ion binding site [ion binding]; other site 1235461015361 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461015362 Magnesium ion binding site [ion binding]; other site 1235461015363 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1235461015364 ParB-like nuclease domain; Region: ParB; smart00470 1235461015365 S-element; C770_GR4pD0004 1235461015366 replication initiation protein RepC; Provisional; Region: PRK13824 1235461015367 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1235461015368 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1235461015369 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 1235461015370 HTH DNA binding domain; Region: HTH_13; pfam11972 1235461015371 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461015372 EamA-like transporter family; Region: EamA; pfam00892 1235461015373 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1235461015374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461015375 DNA-binding site [nucleotide binding]; DNA binding site 1235461015376 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461015377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461015378 homodimer interface [polypeptide binding]; other site 1235461015379 catalytic residue [active] 1235461015380 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1235461015381 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1235461015382 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1235461015383 shikimate binding site; other site 1235461015384 NAD(P) binding site [chemical binding]; other site 1235461015385 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461015386 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1235461015387 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1235461015388 DctM-like transporters; Region: DctM; pfam06808 1235461015389 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461015390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461015391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461015392 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 1235461015393 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461015394 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1235461015395 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1235461015396 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1235461015397 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1235461015398 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1235461015399 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1235461015400 active site 1235461015401 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1235461015402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1235461015403 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1235461015404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1235461015405 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1235461015406 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1235461015407 RNA binding surface [nucleotide binding]; other site 1235461015408 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1235461015409 active site 1235461015410 5-oxoprolinase; Region: PLN02666 1235461015411 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1235461015412 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1235461015413 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1235461015414 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1235461015415 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461015416 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461015417 putative DNA binding site [nucleotide binding]; other site 1235461015418 putative Zn2+ binding site [ion binding]; other site 1235461015419 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461015420 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1235461015421 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1235461015422 tetramer interface [polypeptide binding]; other site 1235461015423 TPP-binding site [chemical binding]; other site 1235461015424 heterodimer interface [polypeptide binding]; other site 1235461015425 phosphorylation loop region [posttranslational modification] 1235461015426 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1235461015427 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1235461015428 alpha subunit interface [polypeptide binding]; other site 1235461015429 TPP binding site [chemical binding]; other site 1235461015430 heterodimer interface [polypeptide binding]; other site 1235461015431 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1235461015432 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 1235461015433 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1235461015434 E3 interaction surface; other site 1235461015435 lipoyl attachment site [posttranslational modification]; other site 1235461015436 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1235461015437 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 1235461015438 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461015439 putative ligand binding site [chemical binding]; other site 1235461015440 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461015441 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1235461015442 Walker A/P-loop; other site 1235461015443 ATP binding site [chemical binding]; other site 1235461015444 Q-loop/lid; other site 1235461015445 ABC transporter signature motif; other site 1235461015446 Walker B; other site 1235461015447 D-loop; other site 1235461015448 H-loop/switch region; other site 1235461015449 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461015450 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461015451 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461015452 TM-ABC transporter signature motif; other site 1235461015453 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461015454 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461015455 TM-ABC transporter signature motif; other site 1235461015456 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461015457 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461015458 DNA binding site [nucleotide binding] 1235461015459 domain linker motif; other site 1235461015460 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1235461015461 dimerization interface [polypeptide binding]; other site 1235461015462 ligand binding site [chemical binding]; other site 1235461015463 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461015464 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461015465 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461015466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461015467 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461015468 NAD(P) binding site [chemical binding]; other site 1235461015469 active site 1235461015470 Vitamin K epoxide reductase family in bacteria; Region: VKOR_2; cd12919 1235461015471 putative active site [active] 1235461015472 redox center [active] 1235461015473 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1235461015474 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1235461015475 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461015476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461015477 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1235461015478 dimerization interface [polypeptide binding]; other site 1235461015479 substrate binding pocket [chemical binding]; other site 1235461015480 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 1235461015481 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 1235461015482 active site 1235461015483 DNA binding site [nucleotide binding] 1235461015484 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 1235461015485 DNA binding site [nucleotide binding] 1235461015486 hydroperoxidase II; Provisional; Region: katE; PRK11249 1235461015487 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1235461015488 tetramer interface [polypeptide binding]; other site 1235461015489 heme binding pocket [chemical binding]; other site 1235461015490 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1235461015491 domain interactions; other site 1235461015492 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 1235461015493 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1235461015494 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461015495 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1235461015496 putative C-terminal domain interface [polypeptide binding]; other site 1235461015497 putative GSH binding site (G-site) [chemical binding]; other site 1235461015498 putative dimer interface [polypeptide binding]; other site 1235461015499 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1235461015500 putative N-terminal domain interface [polypeptide binding]; other site 1235461015501 putative dimer interface [polypeptide binding]; other site 1235461015502 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461015503 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461015504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461015505 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1235461015506 putative effector binding pocket; other site 1235461015507 putative dimerization interface [polypeptide binding]; other site 1235461015508 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 1235461015509 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1235461015510 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461015511 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461015512 Walker A/P-loop; other site 1235461015513 ATP binding site [chemical binding]; other site 1235461015514 Q-loop/lid; other site 1235461015515 ABC transporter signature motif; other site 1235461015516 Walker B; other site 1235461015517 D-loop; other site 1235461015518 H-loop/switch region; other site 1235461015519 TOBE domain; Region: TOBE_2; pfam08402 1235461015520 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1235461015521 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1235461015522 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1235461015523 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1235461015524 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461015525 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015526 dimer interface [polypeptide binding]; other site 1235461015527 conserved gate region; other site 1235461015528 putative PBP binding loops; other site 1235461015529 ABC-ATPase subunit interface; other site 1235461015530 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461015531 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015532 putative PBP binding loops; other site 1235461015533 ABC-ATPase subunit interface; other site 1235461015534 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461015535 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461015536 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1235461015537 oligomeric interface; other site 1235461015538 putative active site [active] 1235461015539 homodimer interface [polypeptide binding]; other site 1235461015540 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461015541 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1235461015542 putative dimerization interface [polypeptide binding]; other site 1235461015543 putative ligand binding site [chemical binding]; other site 1235461015544 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1235461015545 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461015546 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461015547 alpha-galactosidase; Provisional; Region: PRK15076 1235461015548 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1235461015549 NAD binding site [chemical binding]; other site 1235461015550 sugar binding site [chemical binding]; other site 1235461015551 divalent metal binding site [ion binding]; other site 1235461015552 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1235461015553 dimer interface [polypeptide binding]; other site 1235461015554 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 1235461015555 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1235461015556 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461015557 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015558 dimer interface [polypeptide binding]; other site 1235461015559 conserved gate region; other site 1235461015560 putative PBP binding loops; other site 1235461015561 ABC-ATPase subunit interface; other site 1235461015562 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461015563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015564 dimer interface [polypeptide binding]; other site 1235461015565 conserved gate region; other site 1235461015566 putative PBP binding loops; other site 1235461015567 ABC-ATPase subunit interface; other site 1235461015568 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1235461015569 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461015570 Walker A/P-loop; other site 1235461015571 ATP binding site [chemical binding]; other site 1235461015572 Q-loop/lid; other site 1235461015573 ABC transporter signature motif; other site 1235461015574 Walker B; other site 1235461015575 D-loop; other site 1235461015576 H-loop/switch region; other site 1235461015577 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461015578 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461015579 Walker A/P-loop; other site 1235461015580 ATP binding site [chemical binding]; other site 1235461015581 Q-loop/lid; other site 1235461015582 ABC transporter signature motif; other site 1235461015583 Walker B; other site 1235461015584 D-loop; other site 1235461015585 H-loop/switch region; other site 1235461015586 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461015587 alpha-galactosidase; Provisional; Region: PRK15076 1235461015588 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1235461015589 NAD binding site [chemical binding]; other site 1235461015590 sugar binding site [chemical binding]; other site 1235461015591 divalent metal binding site [ion binding]; other site 1235461015592 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1235461015593 dimer interface [polypeptide binding]; other site 1235461015594 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1235461015595 Phenylacetic acid-responsive transcriptional repressor [Transcription]; Region: PaaX; COG3327 1235461015596 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461015597 putative DNA binding site [nucleotide binding]; other site 1235461015598 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1235461015599 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1235461015600 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1235461015601 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1235461015602 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1235461015603 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1235461015604 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1235461015605 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1235461015606 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1235461015607 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1235461015608 FAD binding pocket [chemical binding]; other site 1235461015609 FAD binding motif [chemical binding]; other site 1235461015610 phosphate binding motif [ion binding]; other site 1235461015611 beta-alpha-beta structure motif; other site 1235461015612 NAD(p) ribose binding residues [chemical binding]; other site 1235461015613 NAD binding pocket [chemical binding]; other site 1235461015614 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1235461015615 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461015616 catalytic loop [active] 1235461015617 iron binding site [ion binding]; other site 1235461015618 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1235461015619 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1235461015620 substrate binding site [chemical binding]; other site 1235461015621 dimer interface [polypeptide binding]; other site 1235461015622 NADP binding site [chemical binding]; other site 1235461015623 catalytic residues [active] 1235461015624 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 1235461015625 substrate binding site [chemical binding]; other site 1235461015626 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1235461015627 enoyl-CoA hydratase; Provisional; Region: PRK08140 1235461015628 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461015629 substrate binding site [chemical binding]; other site 1235461015630 oxyanion hole (OAH) forming residues; other site 1235461015631 trimer interface [polypeptide binding]; other site 1235461015632 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1235461015633 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1235461015634 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1235461015635 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1235461015636 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1235461015637 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1235461015638 dimer interface [polypeptide binding]; other site 1235461015639 active site 1235461015640 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1235461015641 catalytic residues [active] 1235461015642 substrate binding site [chemical binding]; other site 1235461015643 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1235461015644 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1235461015645 NAD(P) binding pocket [chemical binding]; other site 1235461015646 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461015647 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461015648 DNA binding site [nucleotide binding] 1235461015649 domain linker motif; other site 1235461015650 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1235461015651 dimerization interface [polypeptide binding]; other site 1235461015652 ligand binding site [chemical binding]; other site 1235461015653 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461015654 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461015655 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015656 dimer interface [polypeptide binding]; other site 1235461015657 conserved gate region; other site 1235461015658 putative PBP binding loops; other site 1235461015659 ABC-ATPase subunit interface; other site 1235461015660 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461015661 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015662 dimer interface [polypeptide binding]; other site 1235461015663 conserved gate region; other site 1235461015664 putative PBP binding loops; other site 1235461015665 ABC-ATPase subunit interface; other site 1235461015666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1235461015667 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1235461015668 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461015669 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461015670 Walker A/P-loop; other site 1235461015671 ATP binding site [chemical binding]; other site 1235461015672 Q-loop/lid; other site 1235461015673 ABC transporter signature motif; other site 1235461015674 Walker B; other site 1235461015675 D-loop; other site 1235461015676 H-loop/switch region; other site 1235461015677 TOBE domain; Region: TOBE_2; pfam08402 1235461015678 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 1235461015679 Predicted transcriptional regulator [Transcription]; Region: COG3905 1235461015680 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1235461015681 Cupin; Region: Cupin_6; pfam12852 1235461015682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461015683 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461015684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461015685 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1235461015686 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461015687 putative substrate translocation pore; other site 1235461015688 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1235461015689 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1235461015690 Phosphotransferase enzyme family; Region: APH; pfam01636 1235461015691 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1235461015692 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461015693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461015694 Walker A/P-loop; other site 1235461015695 ATP binding site [chemical binding]; other site 1235461015696 Q-loop/lid; other site 1235461015697 ABC transporter signature motif; other site 1235461015698 Walker B; other site 1235461015699 D-loop; other site 1235461015700 H-loop/switch region; other site 1235461015701 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461015702 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1235461015703 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461015704 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461015705 TM-ABC transporter signature motif; other site 1235461015706 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1235461015707 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461015708 putative ligand binding site [chemical binding]; other site 1235461015709 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1235461015710 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1235461015711 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1235461015712 thiamine phosphate binding site [chemical binding]; other site 1235461015713 active site 1235461015714 pyrophosphate binding site [ion binding]; other site 1235461015715 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1235461015716 ThiS interaction site; other site 1235461015717 putative active site [active] 1235461015718 tetramer interface [polypeptide binding]; other site 1235461015719 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1235461015720 thiS-thiF/thiG interaction site; other site 1235461015721 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461015722 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1235461015723 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1235461015724 ThiC-associated domain; Region: ThiC-associated; pfam13667 1235461015725 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1235461015726 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1235461015727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461015728 active site 1235461015729 phosphorylation site [posttranslational modification] 1235461015730 intermolecular recognition site; other site 1235461015731 dimerization interface [polypeptide binding]; other site 1235461015732 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461015733 Walker A motif; other site 1235461015734 ATP binding site [chemical binding]; other site 1235461015735 Walker B motif; other site 1235461015736 arginine finger; other site 1235461015737 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1235461015738 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1235461015739 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461015740 dimer interface [polypeptide binding]; other site 1235461015741 phosphorylation site [posttranslational modification] 1235461015742 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461015743 ATP binding site [chemical binding]; other site 1235461015744 Mg2+ binding site [ion binding]; other site 1235461015745 G-X-G motif; other site 1235461015746 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1235461015747 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1235461015748 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461015749 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461015750 active site 1235461015751 phosphorylation site [posttranslational modification] 1235461015752 intermolecular recognition site; other site 1235461015753 dimerization interface [polypeptide binding]; other site 1235461015754 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461015755 DNA binding residues [nucleotide binding] 1235461015756 dimerization interface [polypeptide binding]; other site 1235461015757 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1235461015758 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461015759 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461015760 dimer interface [polypeptide binding]; other site 1235461015761 phosphorylation site [posttranslational modification] 1235461015762 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461015763 ATP binding site [chemical binding]; other site 1235461015764 Mg2+ binding site [ion binding]; other site 1235461015765 G-X-G motif; other site 1235461015766 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461015767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461015768 active site 1235461015769 phosphorylation site [posttranslational modification] 1235461015770 intermolecular recognition site; other site 1235461015771 dimerization interface [polypeptide binding]; other site 1235461015772 Sterile alpha motif; Region: SAM; smart00454 1235461015773 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 1235461015774 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1235461015775 cyclase homology domain; Region: CHD; cd07302 1235461015776 nucleotidyl binding site; other site 1235461015777 metal binding site [ion binding]; metal-binding site 1235461015778 dimer interface [polypeptide binding]; other site 1235461015779 AAA ATPase domain; Region: AAA_16; pfam13191 1235461015780 SnoaL-like domain; Region: SnoaL_4; cl17707 1235461015781 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461015782 dimerization interface [polypeptide binding]; other site 1235461015783 putative DNA binding site [nucleotide binding]; other site 1235461015784 putative Zn2+ binding site [ion binding]; other site 1235461015785 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1235461015786 putative hydrophobic ligand binding site [chemical binding]; other site 1235461015787 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461015788 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1235461015789 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1235461015790 putative ligand binding site [chemical binding]; other site 1235461015791 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1235461015792 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461015793 TM-ABC transporter signature motif; other site 1235461015794 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1235461015795 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1235461015796 TM-ABC transporter signature motif; other site 1235461015797 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1235461015798 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1235461015799 Walker A/P-loop; other site 1235461015800 ATP binding site [chemical binding]; other site 1235461015801 Q-loop/lid; other site 1235461015802 ABC transporter signature motif; other site 1235461015803 Walker B; other site 1235461015804 D-loop; other site 1235461015805 H-loop/switch region; other site 1235461015806 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1235461015807 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1235461015808 Walker A/P-loop; other site 1235461015809 ATP binding site [chemical binding]; other site 1235461015810 Q-loop/lid; other site 1235461015811 ABC transporter signature motif; other site 1235461015812 Walker B; other site 1235461015813 D-loop; other site 1235461015814 H-loop/switch region; other site 1235461015815 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1235461015816 ParB-like nuclease domain; Region: ParBc; pfam02195 1235461015817 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1235461015818 MerR family regulatory protein; Region: MerR; pfam00376 1235461015819 DNA binding residues [nucleotide binding] 1235461015820 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461015821 P-loop; other site 1235461015822 Magnesium ion binding site [ion binding]; other site 1235461015823 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 1235461015824 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1235461015825 Magnesium ion binding site [ion binding]; other site 1235461015826 Predicted membrane protein [Function unknown]; Region: COG2259 1235461015827 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1235461015828 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1235461015829 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1235461015830 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1235461015831 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1235461015832 Predicted outer membrane protein [Function unknown]; Region: COG3652 1235461015833 RNA polymerase sigma factor; Provisional; Region: PRK11922 1235461015834 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461015835 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461015836 DNA binding residues [nucleotide binding] 1235461015837 acylphosphatase; Provisional; Region: PRK14425 1235461015838 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1235461015839 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1235461015840 dimer interface [polypeptide binding]; other site 1235461015841 active site 1235461015842 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1235461015843 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1235461015844 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1235461015845 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1235461015846 Bacterial transcriptional regulator; Region: IclR; pfam01614 1235461015847 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1235461015848 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1235461015849 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1235461015850 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 1235461015851 Moco binding site; other site 1235461015852 metal coordination site [ion binding]; other site 1235461015853 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1235461015854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461015855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461015856 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 1235461015857 putative dimerization interface [polypeptide binding]; other site 1235461015858 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461015859 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1235461015860 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1235461015861 dimer interface [polypeptide binding]; other site 1235461015862 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1235461015863 active site 1235461015864 Fe binding site [ion binding]; other site 1235461015865 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1235461015866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461015867 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461015868 dimerization interface [polypeptide binding]; other site 1235461015869 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461015870 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1235461015871 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1235461015872 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 1235461015873 heterodimer interface [polypeptide binding]; other site 1235461015874 multimer interface [polypeptide binding]; other site 1235461015875 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1235461015876 active site 1235461015877 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1235461015878 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 1235461015879 heterodimer interface [polypeptide binding]; other site 1235461015880 active site 1235461015881 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 1235461015882 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1235461015883 tetramer interface [polypeptide binding]; other site 1235461015884 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 1235461015885 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1235461015886 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1235461015887 active site 1235461015888 catalytic site [active] 1235461015889 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461015890 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 1235461015891 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1235461015892 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1235461015893 active site 1235461015894 non-prolyl cis peptide bond; other site 1235461015895 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1235461015896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461015897 dimer interface [polypeptide binding]; other site 1235461015898 conserved gate region; other site 1235461015899 putative PBP binding loops; other site 1235461015900 ABC-ATPase subunit interface; other site 1235461015901 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1235461015902 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461015903 substrate binding pocket [chemical binding]; other site 1235461015904 membrane-bound complex binding site; other site 1235461015905 hinge residues; other site 1235461015906 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1235461015907 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1235461015908 Walker A/P-loop; other site 1235461015909 ATP binding site [chemical binding]; other site 1235461015910 Q-loop/lid; other site 1235461015911 ABC transporter signature motif; other site 1235461015912 Walker B; other site 1235461015913 D-loop; other site 1235461015914 H-loop/switch region; other site 1235461015915 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1235461015916 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1235461015917 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1235461015918 TM-ABC transporter signature motif; other site 1235461015919 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1235461015920 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461015921 TM-ABC transporter signature motif; other site 1235461015922 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461015923 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1235461015924 Walker A/P-loop; other site 1235461015925 ATP binding site [chemical binding]; other site 1235461015926 Q-loop/lid; other site 1235461015927 ABC transporter signature motif; other site 1235461015928 Walker B; other site 1235461015929 D-loop; other site 1235461015930 H-loop/switch region; other site 1235461015931 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1235461015932 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1235461015933 Walker A/P-loop; other site 1235461015934 ATP binding site [chemical binding]; other site 1235461015935 Q-loop/lid; other site 1235461015936 ABC transporter signature motif; other site 1235461015937 Walker B; other site 1235461015938 D-loop; other site 1235461015939 H-loop/switch region; other site 1235461015940 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1235461015941 CHASE2 domain; Region: CHASE2; pfam05226 1235461015942 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461015943 cyclase homology domain; Region: CHD; cd07302 1235461015944 nucleotidyl binding site; other site 1235461015945 metal binding site [ion binding]; metal-binding site 1235461015946 dimer interface [polypeptide binding]; other site 1235461015947 FecR protein; Region: FecR; pfam04773 1235461015948 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461015949 TPR motif; other site 1235461015950 TPR repeat; Region: TPR_11; pfam13414 1235461015951 binding surface 1235461015952 TPR repeat; Region: TPR_11; pfam13414 1235461015953 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461015954 binding surface 1235461015955 TPR motif; other site 1235461015956 TPR repeat; Region: TPR_11; pfam13414 1235461015957 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461015958 binding surface 1235461015959 TPR motif; other site 1235461015960 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1235461015961 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461015962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461015963 DNA-binding site [nucleotide binding]; DNA binding site 1235461015964 FCD domain; Region: FCD; pfam07729 1235461015965 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1235461015966 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1235461015967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1235461015968 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1235461015969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1235461015970 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1235461015971 dihydroxyacetone kinase; Provisional; Region: PRK14479 1235461015972 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1235461015973 DAK2 domain; Region: Dak2; pfam02734 1235461015974 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 1235461015975 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1235461015976 trimer interface [polypeptide binding]; other site 1235461015977 active site 1235461015978 substrate binding site [chemical binding]; other site 1235461015979 CoA binding site [chemical binding]; other site 1235461015980 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1235461015981 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461015982 Walker A/P-loop; other site 1235461015983 ATP binding site [chemical binding]; other site 1235461015984 Q-loop/lid; other site 1235461015985 ABC transporter signature motif; other site 1235461015986 Walker B; other site 1235461015987 D-loop; other site 1235461015988 H-loop/switch region; other site 1235461015989 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1235461015990 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461015991 Walker A/P-loop; other site 1235461015992 ATP binding site [chemical binding]; other site 1235461015993 Q-loop/lid; other site 1235461015994 ABC transporter signature motif; other site 1235461015995 Walker B; other site 1235461015996 D-loop; other site 1235461015997 H-loop/switch region; other site 1235461015998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461015999 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 1235461016000 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 1235461016001 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 1235461016002 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1235461016003 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1235461016004 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461016005 DNA-binding site [nucleotide binding]; DNA binding site 1235461016006 UTRA domain; Region: UTRA; pfam07702 1235461016007 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1235461016008 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 1235461016009 active site 1235461016010 substrate binding site [chemical binding]; other site 1235461016011 coenzyme B12 binding site [chemical binding]; other site 1235461016012 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1235461016013 B12 binding site [chemical binding]; other site 1235461016014 cobalt ligand [ion binding]; other site 1235461016015 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1235461016016 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1235461016017 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1235461016018 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1235461016019 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1235461016020 carboxyltransferase (CT) interaction site; other site 1235461016021 biotinylation site [posttranslational modification]; other site 1235461016022 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1235461016023 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1235461016024 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1235461016025 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461016026 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461016027 non-specific DNA binding site [nucleotide binding]; other site 1235461016028 salt bridge; other site 1235461016029 sequence-specific DNA binding site [nucleotide binding]; other site 1235461016030 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1235461016031 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1235461016032 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1235461016033 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1235461016034 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1235461016035 substrate binding pocket [chemical binding]; other site 1235461016036 FAD binding site [chemical binding]; other site 1235461016037 catalytic base [active] 1235461016038 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1235461016039 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461016040 substrate binding site [chemical binding]; other site 1235461016041 oxyanion hole (OAH) forming residues; other site 1235461016042 trimer interface [polypeptide binding]; other site 1235461016043 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1235461016044 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1235461016045 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1235461016046 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 1235461016047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461016048 NAD(P) binding site [chemical binding]; other site 1235461016049 active site 1235461016050 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1235461016051 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1235461016052 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1235461016053 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1235461016054 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1235461016055 active site 1235461016056 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1235461016057 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461016058 motif II; other site 1235461016059 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 1235461016060 glutamine synthetase; Region: PLN02284 1235461016061 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1235461016062 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1235461016063 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1235461016064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1235461016065 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1235461016066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1235461016067 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461016068 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461016069 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461016070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461016071 active site 1235461016072 phosphorylation site [posttranslational modification] 1235461016073 intermolecular recognition site; other site 1235461016074 dimerization interface [polypeptide binding]; other site 1235461016075 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461016076 DNA binding site [nucleotide binding] 1235461016077 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1235461016078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461016079 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461016080 dimer interface [polypeptide binding]; other site 1235461016081 phosphorylation site [posttranslational modification] 1235461016082 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461016083 ATP binding site [chemical binding]; other site 1235461016084 Mg2+ binding site [ion binding]; other site 1235461016085 G-X-G motif; other site 1235461016086 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461016087 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1235461016088 putative ligand binding site [chemical binding]; other site 1235461016089 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461016090 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016091 TM-ABC transporter signature motif; other site 1235461016092 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461016093 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461016094 Walker A/P-loop; other site 1235461016095 ATP binding site [chemical binding]; other site 1235461016096 Q-loop/lid; other site 1235461016097 ABC transporter signature motif; other site 1235461016098 Walker B; other site 1235461016099 D-loop; other site 1235461016100 H-loop/switch region; other site 1235461016101 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461016102 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461016103 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461016104 DNA binding site [nucleotide binding] 1235461016105 domain linker motif; other site 1235461016106 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1235461016107 dimerization interface [polypeptide binding]; other site 1235461016108 ligand binding site [chemical binding]; other site 1235461016109 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1235461016110 EamA-like transporter family; Region: EamA; pfam00892 1235461016111 EamA-like transporter family; Region: EamA; pfam00892 1235461016112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461016113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461016114 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461016115 dimerization interface [polypeptide binding]; other site 1235461016116 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461016117 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016118 TM-ABC transporter signature motif; other site 1235461016119 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461016120 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461016121 Walker A/P-loop; other site 1235461016122 ATP binding site [chemical binding]; other site 1235461016123 Q-loop/lid; other site 1235461016124 ABC transporter signature motif; other site 1235461016125 Walker B; other site 1235461016126 D-loop; other site 1235461016127 H-loop/switch region; other site 1235461016128 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461016129 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461016130 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1235461016131 putative ligand binding site [chemical binding]; other site 1235461016132 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 1235461016133 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 1235461016134 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1235461016135 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1235461016136 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1235461016137 active site 1235461016138 DNA binding site [nucleotide binding] 1235461016139 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1235461016140 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1235461016141 DNA binding site [nucleotide binding] 1235461016142 active site 1235461016143 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461016144 cyclase homology domain; Region: CHD; cd07302 1235461016145 nucleotidyl binding site; other site 1235461016146 metal binding site [ion binding]; metal-binding site 1235461016147 dimer interface [polypeptide binding]; other site 1235461016148 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1235461016149 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461016150 substrate binding pocket [chemical binding]; other site 1235461016151 membrane-bound complex binding site; other site 1235461016152 hinge residues; other site 1235461016153 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461016154 EamA-like transporter family; Region: EamA; pfam00892 1235461016155 glycogen synthase; Provisional; Region: glgA; PRK00654 1235461016156 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1235461016157 ADP-binding pocket [chemical binding]; other site 1235461016158 homodimer interface [polypeptide binding]; other site 1235461016159 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1235461016160 substrate binding site [chemical binding]; other site 1235461016161 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461016162 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461016163 DNA binding site [nucleotide binding] 1235461016164 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461016165 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1235461016166 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461016167 TPR motif; other site 1235461016168 binding surface 1235461016169 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461016170 binding surface 1235461016171 TPR motif; other site 1235461016172 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1235461016173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461016174 NAD(P) binding site [chemical binding]; other site 1235461016175 active site 1235461016176 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1235461016177 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1235461016178 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461016179 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461016180 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1235461016181 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461016182 putative substrate translocation pore; other site 1235461016183 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 1235461016184 putative metal binding site [ion binding]; other site 1235461016185 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 1235461016186 putative dimer interface [polypeptide binding]; other site 1235461016187 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1235461016188 RES domain; Region: RES; cl02411 1235461016189 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1235461016190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461016191 active site 1235461016192 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 1235461016193 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1235461016194 NADP binding site [chemical binding]; other site 1235461016195 homodimer interface [polypeptide binding]; other site 1235461016196 active site 1235461016197 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1235461016198 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1235461016199 putative catalytic site [active] 1235461016200 putative phosphate binding site [ion binding]; other site 1235461016201 active site 1235461016202 metal binding site A [ion binding]; metal-binding site 1235461016203 DNA binding site [nucleotide binding] 1235461016204 putative AP binding site [nucleotide binding]; other site 1235461016205 putative metal binding site B [ion binding]; other site 1235461016206 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1235461016207 TPR repeat; Region: TPR_11; pfam13414 1235461016208 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461016209 binding surface 1235461016210 TPR motif; other site 1235461016211 TPR repeat; Region: TPR_11; pfam13414 1235461016212 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 1235461016213 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1235461016214 putative DNA binding site [nucleotide binding]; other site 1235461016215 putative homodimer interface [polypeptide binding]; other site 1235461016216 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1235461016217 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1235461016218 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1235461016219 active site 1235461016220 DNA binding site [nucleotide binding] 1235461016221 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1235461016222 DNA binding site [nucleotide binding] 1235461016223 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1235461016224 nucleotide binding site [chemical binding]; other site 1235461016225 hypothetical protein; Provisional; Region: PRK11171 1235461016226 Cupin domain; Region: Cupin_2; pfam07883 1235461016227 Cupin domain; Region: Cupin_2; pfam07883 1235461016228 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1235461016229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461016230 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 1235461016231 putative dimerization interface [polypeptide binding]; other site 1235461016232 putative substrate binding pocket [chemical binding]; other site 1235461016233 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1235461016234 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1235461016235 Bacterial transcriptional regulator; Region: IclR; pfam01614 1235461016236 glyoxylate carboligase; Provisional; Region: PRK11269 1235461016237 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1235461016238 PYR/PP interface [polypeptide binding]; other site 1235461016239 dimer interface [polypeptide binding]; other site 1235461016240 TPP binding site [chemical binding]; other site 1235461016241 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1235461016242 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 1235461016243 TPP-binding site [chemical binding]; other site 1235461016244 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1235461016245 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1235461016246 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1235461016247 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1235461016248 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1235461016249 MOFRL family; Region: MOFRL; pfam05161 1235461016250 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1235461016251 ureidoglycolate hydrolase; Provisional; Region: PRK13395 1235461016252 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 1235461016253 Uncharacterized conserved protein [Function unknown]; Region: COG3506 1235461016254 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461016255 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461016256 DNA binding site [nucleotide binding] 1235461016257 domain linker motif; other site 1235461016258 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1235461016259 dimerization interface [polypeptide binding]; other site 1235461016260 ligand binding site [chemical binding]; other site 1235461016261 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461016262 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461016263 Walker A/P-loop; other site 1235461016264 ATP binding site [chemical binding]; other site 1235461016265 Q-loop/lid; other site 1235461016266 ABC transporter signature motif; other site 1235461016267 Walker B; other site 1235461016268 D-loop; other site 1235461016269 H-loop/switch region; other site 1235461016270 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461016271 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 1235461016272 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461016273 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016274 TM-ABC transporter signature motif; other site 1235461016275 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461016276 Periplasmic binding domain of two-component sensor kinase signaling systems; Region: PBP1_sensor_kinase_like; cd06308 1235461016277 putative ligand binding site [chemical binding]; other site 1235461016278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1235461016279 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1235461016280 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1235461016281 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1235461016282 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461016283 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461016284 DNA binding site [nucleotide binding] 1235461016285 domain linker motif; other site 1235461016286 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1235461016287 putative dimerization interface [polypeptide binding]; other site 1235461016288 putative ligand binding site [chemical binding]; other site 1235461016289 putative aldolase; Validated; Region: PRK08130 1235461016290 intersubunit interface [polypeptide binding]; other site 1235461016291 active site 1235461016292 Zn2+ binding site [ion binding]; other site 1235461016293 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461016294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461016295 DNA-binding site [nucleotide binding]; DNA binding site 1235461016296 FCD domain; Region: FCD; pfam07729 1235461016297 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461016298 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1235461016299 putative NAD(P) binding site [chemical binding]; other site 1235461016300 active site 1235461016301 putative substrate binding site [chemical binding]; other site 1235461016302 classical (c) SDRs; Region: SDR_c; cd05233 1235461016303 NAD(P) binding site [chemical binding]; other site 1235461016304 active site 1235461016305 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461016306 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461016307 Walker A/P-loop; other site 1235461016308 ATP binding site [chemical binding]; other site 1235461016309 Q-loop/lid; other site 1235461016310 ABC transporter signature motif; other site 1235461016311 Walker B; other site 1235461016312 D-loop; other site 1235461016313 H-loop/switch region; other site 1235461016314 TOBE domain; Region: TOBE; pfam03459 1235461016315 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461016316 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461016317 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461016318 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461016319 dimer interface [polypeptide binding]; other site 1235461016320 conserved gate region; other site 1235461016321 putative PBP binding loops; other site 1235461016322 ABC-ATPase subunit interface; other site 1235461016323 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461016324 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461016325 dimer interface [polypeptide binding]; other site 1235461016326 conserved gate region; other site 1235461016327 putative PBP binding loops; other site 1235461016328 ABC-ATPase subunit interface; other site 1235461016329 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461016330 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461016331 active site 1235461016332 catalytic tetrad [active] 1235461016333 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1235461016334 dimer interface [polypeptide binding]; other site 1235461016335 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1235461016336 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1235461016337 active site 1235461016338 dimer interface [polypeptide binding]; other site 1235461016339 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1235461016340 Ligand Binding Site [chemical binding]; other site 1235461016341 Molecular Tunnel; other site 1235461016342 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1235461016343 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1235461016344 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1235461016345 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 1235461016346 acyl-activating enzyme (AAE) consensus motif; other site 1235461016347 putative AMP binding site [chemical binding]; other site 1235461016348 putative active site [active] 1235461016349 putative CoA binding site [chemical binding]; other site 1235461016350 NAD synthetase; Reviewed; Region: nadE; PRK00876 1235461016351 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1235461016352 homodimer interface [polypeptide binding]; other site 1235461016353 NAD binding pocket [chemical binding]; other site 1235461016354 ATP binding pocket [chemical binding]; other site 1235461016355 Mg binding site [ion binding]; other site 1235461016356 active-site loop [active] 1235461016357 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461016358 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461016359 active site 1235461016360 catalytic tetrad [active] 1235461016361 septum formation inhibitor; Reviewed; Region: minC; PRK05177 1235461016362 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1235461016363 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1235461016364 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1235461016365 Switch I; other site 1235461016366 Switch II; other site 1235461016367 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1235461016368 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461016369 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461016370 active site 1235461016371 phosphorylation site [posttranslational modification] 1235461016372 intermolecular recognition site; other site 1235461016373 dimerization interface [polypeptide binding]; other site 1235461016374 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461016375 DNA binding residues [nucleotide binding] 1235461016376 dimerization interface [polypeptide binding]; other site 1235461016377 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1235461016378 Histidine kinase; Region: HisKA_3; pfam07730 1235461016379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461016380 ATP binding site [chemical binding]; other site 1235461016381 Mg2+ binding site [ion binding]; other site 1235461016382 G-X-G motif; other site 1235461016383 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461016384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461016385 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461016386 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1235461016387 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1235461016388 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461016389 S-adenosylmethionine binding site [chemical binding]; other site 1235461016390 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1235461016391 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1235461016392 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461016393 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1235461016394 inhibitor site; inhibition site 1235461016395 active site 1235461016396 dimer interface [polypeptide binding]; other site 1235461016397 catalytic residue [active] 1235461016398 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1235461016399 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1235461016400 O-Antigen ligase; Region: Wzy_C; pfam04932 1235461016401 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1235461016402 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 1235461016403 putative active site [active] 1235461016404 putative metal binding site [ion binding]; other site 1235461016405 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461016406 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1235461016407 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 1235461016408 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 1235461016409 Helix-turn-helix domain; Region: HTH_28; pfam13518 1235461016410 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461016411 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461016412 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 1235461016413 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461016414 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461016415 active site 1235461016416 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1235461016417 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461016418 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461016419 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461016420 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 1235461016421 active site 1235461016422 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461016423 ornithine cyclodeaminase; Validated; Region: PRK07589 1235461016424 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1235461016425 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461016426 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1235461016427 putative DNA binding site [nucleotide binding]; other site 1235461016428 putative Zn2+ binding site [ion binding]; other site 1235461016429 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461016430 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 1235461016431 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1235461016432 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1235461016433 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1235461016434 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1235461016435 Subunit I/III interface [polypeptide binding]; other site 1235461016436 Subunit III/IV interface [polypeptide binding]; other site 1235461016437 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1235461016438 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1235461016439 D-pathway; other site 1235461016440 Putative ubiquinol binding site [chemical binding]; other site 1235461016441 Low-spin heme (heme b) binding site [chemical binding]; other site 1235461016442 Putative water exit pathway; other site 1235461016443 Binuclear center (heme o3/CuB) [ion binding]; other site 1235461016444 K-pathway; other site 1235461016445 Putative proton exit pathway; other site 1235461016446 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1235461016447 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1235461016448 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1235461016449 metabolite-proton symporter; Region: 2A0106; TIGR00883 1235461016450 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461016451 putative substrate translocation pore; other site 1235461016452 RNA polymerase sigma factor; Provisional; Region: PRK12547 1235461016453 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461016454 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461016455 DNA binding residues [nucleotide binding] 1235461016456 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1235461016457 FOG: CBS domain [General function prediction only]; Region: COG0517 1235461016458 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1235461016459 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461016460 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461016461 classical (c) SDRs; Region: SDR_c; cd05233 1235461016462 NAD(P) binding site [chemical binding]; other site 1235461016463 active site 1235461016464 Predicted small integral membrane protein [Function unknown]; Region: COG5478 1235461016465 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461016466 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461016467 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461016468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 1235461016469 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1235461016470 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461016471 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1235461016472 Walker A/P-loop; other site 1235461016473 ATP binding site [chemical binding]; other site 1235461016474 Q-loop/lid; other site 1235461016475 ABC transporter signature motif; other site 1235461016476 Walker B; other site 1235461016477 D-loop; other site 1235461016478 H-loop/switch region; other site 1235461016479 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1235461016480 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461016481 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461016482 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1235461016483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461016484 DNA-binding site [nucleotide binding]; DNA binding site 1235461016485 UTRA domain; Region: UTRA; pfam07702 1235461016486 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1235461016487 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1235461016488 NAD binding site [chemical binding]; other site 1235461016489 sugar binding site [chemical binding]; other site 1235461016490 divalent metal binding site [ion binding]; other site 1235461016491 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1235461016492 dimer interface [polypeptide binding]; other site 1235461016493 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461016494 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1235461016495 substrate binding site [chemical binding]; other site 1235461016496 ATP binding site [chemical binding]; other site 1235461016497 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461016498 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461016499 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461016500 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461016501 Walker A/P-loop; other site 1235461016502 ATP binding site [chemical binding]; other site 1235461016503 Q-loop/lid; other site 1235461016504 ABC transporter signature motif; other site 1235461016505 Walker B; other site 1235461016506 D-loop; other site 1235461016507 H-loop/switch region; other site 1235461016508 TOBE domain; Region: TOBE_2; pfam08402 1235461016509 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461016510 dimer interface [polypeptide binding]; other site 1235461016511 conserved gate region; other site 1235461016512 putative PBP binding loops; other site 1235461016513 ABC-ATPase subunit interface; other site 1235461016514 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461016515 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461016516 dimer interface [polypeptide binding]; other site 1235461016517 conserved gate region; other site 1235461016518 putative PBP binding loops; other site 1235461016519 ABC-ATPase subunit interface; other site 1235461016520 Uncharacterized conserved protein [Function unknown]; Region: COG1415 1235461016521 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1235461016522 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1235461016523 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 1235461016524 glutathione s-transferase; Provisional; Region: PTZ00057 1235461016525 GSH binding site (G-site) [chemical binding]; other site 1235461016526 C-terminal domain interface [polypeptide binding]; other site 1235461016527 dimer interface [polypeptide binding]; other site 1235461016528 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 1235461016529 N-terminal domain interface [polypeptide binding]; other site 1235461016530 substrate binding pocket (H-site) [chemical binding]; other site 1235461016531 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1235461016532 Fe-S cluster binding site [ion binding]; other site 1235461016533 active site 1235461016534 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1235461016535 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1235461016536 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1235461016537 catalytic site [active] 1235461016538 active site 1235461016539 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1235461016540 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1235461016541 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1235461016542 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1235461016543 active site 1235461016544 catalytic site [active] 1235461016545 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1235461016546 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 1235461016547 active site 1235461016548 DNA binding site [nucleotide binding] 1235461016549 Int/Topo IB signature motif; other site 1235461016550 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1235461016551 BON domain; Region: BON; pfam04972 1235461016552 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1235461016553 FOG: CBS domain [General function prediction only]; Region: COG0517 1235461016554 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1235461016555 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 1235461016556 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461016557 homotrimer interaction site [polypeptide binding]; other site 1235461016558 putative active site [active] 1235461016559 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461016560 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1235461016561 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461016562 DctM-like transporters; Region: DctM; pfam06808 1235461016563 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461016564 allantoate amidohydrolase; Reviewed; Region: PRK12893 1235461016565 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1235461016566 active site 1235461016567 metal binding site [ion binding]; metal-binding site 1235461016568 dimer interface [polypeptide binding]; other site 1235461016569 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461016570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461016571 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461016572 dimerization interface [polypeptide binding]; other site 1235461016573 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461016574 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461016575 S-adenosylmethionine binding site [chemical binding]; other site 1235461016576 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1235461016577 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 1235461016578 putative ligand binding residues [chemical binding]; other site 1235461016579 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1235461016580 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461016581 ABC-ATPase subunit interface; other site 1235461016582 dimer interface [polypeptide binding]; other site 1235461016583 putative PBP binding regions; other site 1235461016584 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1235461016585 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1235461016586 Walker A/P-loop; other site 1235461016587 ATP binding site [chemical binding]; other site 1235461016588 Q-loop/lid; other site 1235461016589 ABC transporter signature motif; other site 1235461016590 Walker B; other site 1235461016591 D-loop; other site 1235461016592 H-loop/switch region; other site 1235461016593 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1235461016594 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1235461016595 putative trimer interface [polypeptide binding]; other site 1235461016596 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1235461016597 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1235461016598 trimer interface [polypeptide binding]; other site 1235461016599 active site 1235461016600 substrate binding site [chemical binding]; other site 1235461016601 putative CoA binding site [chemical binding]; other site 1235461016602 CoA binding site [chemical binding]; other site 1235461016603 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1235461016604 extended (e) SDRs; Region: SDR_e; cd08946 1235461016605 NAD(P) binding site [chemical binding]; other site 1235461016606 active site 1235461016607 substrate binding site [chemical binding]; other site 1235461016608 Cephalosporin hydroxylase [Defense mechanisms]; Region: CmcI; COG3510 1235461016609 Predicted acyl esterases [General function prediction only]; Region: COG2936 1235461016610 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1235461016611 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461016612 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016613 TM-ABC transporter signature motif; other site 1235461016614 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461016615 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461016616 Walker A/P-loop; other site 1235461016617 ATP binding site [chemical binding]; other site 1235461016618 Q-loop/lid; other site 1235461016619 ABC transporter signature motif; other site 1235461016620 Walker B; other site 1235461016621 D-loop; other site 1235461016622 H-loop/switch region; other site 1235461016623 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461016624 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461016625 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1235461016626 ligand binding site [chemical binding]; other site 1235461016627 L-arabinose isomerase [Carbohydrate transport and metabolism]; Region: AraA; COG2160 1235461016628 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 1235461016629 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1235461016630 substrate binding site [chemical binding]; other site 1235461016631 trimer interface [polypeptide binding]; other site 1235461016632 Mn binding site [ion binding]; other site 1235461016633 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1235461016634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461016635 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461016636 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461016637 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1235461016638 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461016639 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1235461016640 S-adenosylmethionine binding site [chemical binding]; other site 1235461016641 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1235461016642 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1235461016643 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 1235461016644 NAD binding site [chemical binding]; other site 1235461016645 homotetramer interface [polypeptide binding]; other site 1235461016646 homodimer interface [polypeptide binding]; other site 1235461016647 substrate binding site [chemical binding]; other site 1235461016648 active site 1235461016649 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1235461016650 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1235461016651 substrate binding site; other site 1235461016652 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1235461016653 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461016654 Berberine and berberine like; Region: BBE; pfam08031 1235461016655 tyrosine decarboxylase; Region: PLN02880 1235461016656 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1235461016657 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461016658 catalytic residue [active] 1235461016659 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1235461016660 Ca2+ binding site [ion binding]; other site 1235461016661 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1235461016662 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461016663 S-adenosylmethionine binding site [chemical binding]; other site 1235461016664 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 1235461016665 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1235461016666 putative DNA binding site [nucleotide binding]; other site 1235461016667 putative homodimer interface [polypeptide binding]; other site 1235461016668 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 1235461016669 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1235461016670 putative DNA binding site [nucleotide binding]; other site 1235461016671 putative homodimer interface [polypeptide binding]; other site 1235461016672 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1235461016673 catalytic triad [active] 1235461016674 conserved cis-peptide bond; other site 1235461016675 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1235461016676 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 1235461016677 Homeodomain-like domain; Region: HTH_32; pfam13565 1235461016678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1235461016679 Integrase core domain; Region: rve; pfam00665 1235461016680 Integrase core domain; Region: rve_3; pfam13683 1235461016681 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461016682 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461016683 Walker A/P-loop; other site 1235461016684 ATP binding site [chemical binding]; other site 1235461016685 Q-loop/lid; other site 1235461016686 ABC transporter signature motif; other site 1235461016687 Walker B; other site 1235461016688 D-loop; other site 1235461016689 H-loop/switch region; other site 1235461016690 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016691 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461016692 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016693 TM-ABC transporter signature motif; other site 1235461016694 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1235461016695 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1235461016696 putative ligand binding site [chemical binding]; other site 1235461016697 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1235461016698 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1235461016699 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461016700 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1235461016701 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1235461016702 PAS domain S-box; Region: sensory_box; TIGR00229 1235461016703 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461016704 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461016705 metal binding site [ion binding]; metal-binding site 1235461016706 active site 1235461016707 I-site; other site 1235461016708 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461016709 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461016710 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461016711 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461016712 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461016713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461016714 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1235461016715 putative dimerization interface [polypeptide binding]; other site 1235461016716 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1235461016717 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1235461016718 putative ligand binding site [chemical binding]; other site 1235461016719 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461016720 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461016721 Walker A/P-loop; other site 1235461016722 ATP binding site [chemical binding]; other site 1235461016723 Q-loop/lid; other site 1235461016724 ABC transporter signature motif; other site 1235461016725 Walker B; other site 1235461016726 D-loop; other site 1235461016727 H-loop/switch region; other site 1235461016728 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461016729 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461016730 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016731 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016732 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461016733 TM-ABC transporter signature motif; other site 1235461016734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1235461016735 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1235461016736 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1235461016737 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461016738 NAD(P) binding site [chemical binding]; other site 1235461016739 catalytic residues [active] 1235461016740 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1235461016741 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1235461016742 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1235461016743 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1235461016744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1235461016745 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1235461016746 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1235461016747 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1235461016748 EamA-like transporter family; Region: EamA; pfam00892 1235461016749 YtkA-like; Region: YtkA; pfam13115 1235461016750 HlyD family secretion protein; Region: HlyD_2; pfam12700 1235461016751 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461016752 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1235461016753 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1235461016754 helicase 45; Provisional; Region: PTZ00424 1235461016755 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1235461016756 ATP binding site [chemical binding]; other site 1235461016757 Mg++ binding site [ion binding]; other site 1235461016758 motif III; other site 1235461016759 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1235461016760 nucleotide binding region [chemical binding]; other site 1235461016761 ATP-binding site [chemical binding]; other site 1235461016762 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 1235461016763 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1235461016764 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461016765 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 1235461016766 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1235461016767 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1235461016768 active site 1235461016769 catalytic site [active] 1235461016770 tetramer interface [polypeptide binding]; other site 1235461016771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1235461016772 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1235461016773 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1235461016774 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1235461016775 active site 1235461016776 homotetramer interface [polypeptide binding]; other site 1235461016777 short chain dehydrogenase; Provisional; Region: PRK06500 1235461016778 classical (c) SDRs; Region: SDR_c; cd05233 1235461016779 NAD(P) binding site [chemical binding]; other site 1235461016780 active site 1235461016781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461016782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461016783 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461016784 putative effector binding pocket; other site 1235461016785 dimerization interface [polypeptide binding]; other site 1235461016786 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1235461016787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461016788 active site 1235461016789 phosphorylation site [posttranslational modification] 1235461016790 intermolecular recognition site; other site 1235461016791 dimerization interface [polypeptide binding]; other site 1235461016792 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461016793 DNA binding residues [nucleotide binding] 1235461016794 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461016795 active site 1235461016796 phosphorylation site [posttranslational modification] 1235461016797 intermolecular recognition site; other site 1235461016798 dimerization interface [polypeptide binding]; other site 1235461016799 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 1235461016800 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461016801 PAS fold; Region: PAS_3; pfam08447 1235461016802 putative active site [active] 1235461016803 heme pocket [chemical binding]; other site 1235461016804 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461016805 PAS domain; Region: PAS_9; pfam13426 1235461016806 putative active site [active] 1235461016807 heme pocket [chemical binding]; other site 1235461016808 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461016809 PAS fold; Region: PAS_3; pfam08447 1235461016810 putative active site [active] 1235461016811 heme pocket [chemical binding]; other site 1235461016812 PAS fold; Region: PAS_3; pfam08447 1235461016813 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461016814 putative active site [active] 1235461016815 heme pocket [chemical binding]; other site 1235461016816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461016817 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461016818 ATP binding site [chemical binding]; other site 1235461016819 Mg2+ binding site [ion binding]; other site 1235461016820 G-X-G motif; other site 1235461016821 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461016822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461016823 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1235461016824 NAD(P) binding site [chemical binding]; other site 1235461016825 active site 1235461016826 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1235461016827 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1235461016828 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1235461016829 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1235461016830 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461016831 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461016832 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461016833 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461016834 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461016835 glucose-6-phosphate isomerase; Provisional; Region: PRK04190 1235461016836 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 1235461016837 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_9; cd06318 1235461016838 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461016839 putative ligand binding site [chemical binding]; other site 1235461016840 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461016841 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461016842 Walker A/P-loop; other site 1235461016843 ATP binding site [chemical binding]; other site 1235461016844 Q-loop/lid; other site 1235461016845 ABC transporter signature motif; other site 1235461016846 Walker B; other site 1235461016847 D-loop; other site 1235461016848 H-loop/switch region; other site 1235461016849 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461016850 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461016851 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461016852 TM-ABC transporter signature motif; other site 1235461016853 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461016854 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1235461016855 putative NAD(P) binding site [chemical binding]; other site 1235461016856 catalytic Zn binding site [ion binding]; other site 1235461016857 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1235461016858 Carbohydrate kinase and ribulose-phosphate 3-epimerase fusion proteins-like; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CarbK-RPE_like; cd07783 1235461016859 N- and C-terminal domain interface [polypeptide binding]; other site 1235461016860 active site 1235461016861 MgATP binding site [chemical binding]; other site 1235461016862 catalytic site [active] 1235461016863 metal binding site [ion binding]; metal-binding site 1235461016864 putative carbohydrate binding site [chemical binding]; other site 1235461016865 putative homodimer interface [polypeptide binding]; other site 1235461016866 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1235461016867 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1235461016868 DNA binding residues [nucleotide binding] 1235461016869 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1235461016870 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1235461016871 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1235461016872 active site 1235461016873 substrate binding site [chemical binding]; other site 1235461016874 FMN binding site [chemical binding]; other site 1235461016875 putative catalytic residues [active] 1235461016876 guanine deaminase; Provisional; Region: PRK09228 1235461016877 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1235461016878 active site 1235461016879 Predicted membrane protein [Function unknown]; Region: COG3748 1235461016880 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1235461016881 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461016882 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461016883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461016884 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1235461016885 dimerization interface [polypeptide binding]; other site 1235461016886 substrate binding pocket [chemical binding]; other site 1235461016887 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1235461016888 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461016889 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461016890 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 1235461016891 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461016892 catalytic loop [active] 1235461016893 iron binding site [ion binding]; other site 1235461016894 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461016895 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1235461016896 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1235461016897 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 1235461016898 NAD binding site [chemical binding]; other site 1235461016899 homotetramer interface [polypeptide binding]; other site 1235461016900 homodimer interface [polypeptide binding]; other site 1235461016901 substrate binding site [chemical binding]; other site 1235461016902 active site 1235461016903 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1235461016904 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1235461016905 N- and C-terminal domain interface [polypeptide binding]; other site 1235461016906 active site 1235461016907 MgATP binding site [chemical binding]; other site 1235461016908 catalytic site [active] 1235461016909 metal binding site [ion binding]; metal-binding site 1235461016910 glycerol binding site [chemical binding]; other site 1235461016911 homotetramer interface [polypeptide binding]; other site 1235461016912 homodimer interface [polypeptide binding]; other site 1235461016913 FBP binding site [chemical binding]; other site 1235461016914 protein IIAGlc interface [polypeptide binding]; other site 1235461016915 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461016916 dimerization interface [polypeptide binding]; other site 1235461016917 putative DNA binding site [nucleotide binding]; other site 1235461016918 putative Zn2+ binding site [ion binding]; other site 1235461016919 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1235461016920 putative hydrophobic ligand binding site [chemical binding]; other site 1235461016921 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1235461016922 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1235461016923 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1235461016924 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1235461016925 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1235461016926 active site 1235461016927 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 1235461016928 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461016929 putative substrate translocation pore; other site 1235461016930 microcin B17 transporter; Reviewed; Region: PRK11098 1235461016931 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 1235461016932 NodB motif; other site 1235461016933 putative active site [active] 1235461016934 putative catalytic site [active] 1235461016935 Predicted membrane protein [Function unknown]; Region: COG4094 1235461016936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1235461016937 GTP-binding protein Der; Reviewed; Region: PRK00093 1235461016938 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1235461016939 G1 box; other site 1235461016940 GTP/Mg2+ binding site [chemical binding]; other site 1235461016941 Switch I region; other site 1235461016942 G2 box; other site 1235461016943 Switch II region; other site 1235461016944 G3 box; other site 1235461016945 G4 box; other site 1235461016946 G5 box; other site 1235461016947 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1235461016948 G1 box; other site 1235461016949 GTP/Mg2+ binding site [chemical binding]; other site 1235461016950 Switch I region; other site 1235461016951 G2 box; other site 1235461016952 G3 box; other site 1235461016953 Switch II region; other site 1235461016954 G4 box; other site 1235461016955 G5 box; other site 1235461016956 Predicted transcriptional regulator [Transcription]; Region: COG1959 1235461016957 Transcriptional regulator; Region: Rrf2; pfam02082 1235461016958 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1235461016959 MULE transposase domain; Region: MULE; pfam10551 1235461016960 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1235461016961 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1235461016962 active site 1235461016963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1235461016964 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1235461016965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1235461016966 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1235461016967 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1235461016968 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1235461016969 dimer interface [polypeptide binding]; other site 1235461016970 active site residues [active] 1235461016971 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1235461016972 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1235461016973 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1235461016974 Predicted NTP pyrophosphohydrolase [DNA replication, recombination, and repair / General function prediction only]; Region: COG4119 1235461016975 nudix motif; other site 1235461016976 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 1235461016977 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 1235461016978 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1235461016979 Uroporphyrinogen-III methylase [Coenzyme metabolism]; Region: CysG; COG0007 1235461016980 homodimer interface [polypeptide binding]; other site 1235461016981 active site 1235461016982 SAM binding site [chemical binding]; other site 1235461016983 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1235461016984 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1235461016985 [4Fe-4S] binding site [ion binding]; other site 1235461016986 molybdopterin cofactor binding site; other site 1235461016987 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1235461016988 molybdopterin cofactor binding site; other site 1235461016989 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1235461016990 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 1235461016991 [2Fe-2S] cluster binding site [ion binding]; other site 1235461016992 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1235461016993 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461016994 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1235461016995 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1235461016996 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1235461016997 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461016998 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1235461016999 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461017000 DctM-like transporters; Region: DctM; pfam06808 1235461017001 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461017002 Acyl dehydratase [Lipid metabolism]; Region: MaoC; COG2030 1235461017003 active site 2 [active] 1235461017004 active site 1 [active] 1235461017005 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461017006 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461017007 DNA binding site [nucleotide binding] 1235461017008 domain linker motif; other site 1235461017009 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1235461017010 ligand binding site [chemical binding]; other site 1235461017011 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461017012 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461017013 substrate binding pocket [chemical binding]; other site 1235461017014 membrane-bound complex binding site; other site 1235461017015 hinge residues; other site 1235461017016 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017017 dimer interface [polypeptide binding]; other site 1235461017018 conserved gate region; other site 1235461017019 putative PBP binding loops; other site 1235461017020 ABC-ATPase subunit interface; other site 1235461017021 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1235461017022 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1235461017023 NADP binding site [chemical binding]; other site 1235461017024 homodimer interface [polypeptide binding]; other site 1235461017025 active site 1235461017026 hypothetical protein; Provisional; Region: PRK06148 1235461017027 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1235461017028 active site 1235461017029 ATP binding site [chemical binding]; other site 1235461017030 substrate binding site [chemical binding]; other site 1235461017031 Peptidase family M23; Region: Peptidase_M23; pfam01551 1235461017032 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461017033 inhibitor-cofactor binding pocket; inhibition site 1235461017034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461017035 catalytic residue [active] 1235461017036 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461017037 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461017038 Walker A/P-loop; other site 1235461017039 ATP binding site [chemical binding]; other site 1235461017040 Q-loop/lid; other site 1235461017041 ABC transporter signature motif; other site 1235461017042 Walker B; other site 1235461017043 D-loop; other site 1235461017044 H-loop/switch region; other site 1235461017045 TOBE domain; Region: TOBE_2; pfam08402 1235461017046 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461017047 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461017048 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461017049 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017050 dimer interface [polypeptide binding]; other site 1235461017051 conserved gate region; other site 1235461017052 putative PBP binding loops; other site 1235461017053 ABC-ATPase subunit interface; other site 1235461017054 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461017055 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017056 dimer interface [polypeptide binding]; other site 1235461017057 conserved gate region; other site 1235461017058 putative PBP binding loops; other site 1235461017059 ABC-ATPase subunit interface; other site 1235461017060 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1235461017061 Trehalase; Region: Trehalase; cl17346 1235461017062 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461017063 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461017064 DNA binding site [nucleotide binding] 1235461017065 domain linker motif; other site 1235461017066 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1235461017067 ligand binding site [chemical binding]; other site 1235461017068 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1235461017069 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1235461017070 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1235461017071 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1235461017072 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1235461017073 Beta-lactamase; Region: Beta-lactamase; pfam00144 1235461017074 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1235461017075 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1235461017076 dimer interface [polypeptide binding]; other site 1235461017077 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1235461017078 catalytic triad [active] 1235461017079 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1235461017080 substrate binding site [chemical binding]; other site 1235461017081 dimer interface [polypeptide binding]; other site 1235461017082 ATP binding site [chemical binding]; other site 1235461017083 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 1235461017084 Chain length determinant protein; Region: Wzz; pfam02706 1235461017085 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1235461017086 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1235461017087 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1235461017088 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1235461017089 active site 1235461017090 tetramer interface; other site 1235461017091 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461017092 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1235461017093 active site 1235461017094 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461017095 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1235461017096 active site 1235461017097 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461017098 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 1235461017099 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1235461017100 Ligand binding site; other site 1235461017101 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1235461017102 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 1235461017103 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 1235461017104 active site 1235461017105 active site 1235461017106 catalytic residues [active] 1235461017107 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1235461017108 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1235461017109 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1235461017110 Catalytic site; other site 1235461017111 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1235461017112 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1235461017113 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1235461017114 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1235461017115 active site 1235461017116 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1235461017117 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1235461017118 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1235461017119 active site 1235461017120 Exopolysaccharide production repressor; Region: SyrA; pfam11089 1235461017121 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1235461017122 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1235461017123 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1235461017124 SLBB domain; Region: SLBB; pfam10531 1235461017125 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1235461017126 O-Antigen ligase; Region: Wzy_C; pfam04932 1235461017127 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1235461017128 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1235461017129 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1235461017130 NAD binding site [chemical binding]; other site 1235461017131 homodimer interface [polypeptide binding]; other site 1235461017132 active site 1235461017133 substrate binding site [chemical binding]; other site 1235461017134 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1235461017135 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461017136 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1235461017137 Walker A/P-loop; other site 1235461017138 ATP binding site [chemical binding]; other site 1235461017139 Q-loop/lid; other site 1235461017140 ABC transporter signature motif; other site 1235461017141 Walker B; other site 1235461017142 D-loop; other site 1235461017143 H-loop/switch region; other site 1235461017144 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1235461017145 Ligand Binding Site [chemical binding]; other site 1235461017146 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1235461017147 active site 1235461017148 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1235461017149 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1235461017150 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1235461017151 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1235461017152 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1235461017153 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461017154 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461017155 non-specific DNA binding site [nucleotide binding]; other site 1235461017156 salt bridge; other site 1235461017157 sequence-specific DNA binding site [nucleotide binding]; other site 1235461017158 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461017159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461017160 active site 1235461017161 phosphorylation site [posttranslational modification] 1235461017162 intermolecular recognition site; other site 1235461017163 dimerization interface [polypeptide binding]; other site 1235461017164 PAS domain; Region: PAS_9; pfam13426 1235461017165 PAS domain S-box; Region: sensory_box; TIGR00229 1235461017166 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461017167 putative active site [active] 1235461017168 heme pocket [chemical binding]; other site 1235461017169 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1235461017170 GAF domain; Region: GAF; pfam01590 1235461017171 PAS fold; Region: PAS_4; pfam08448 1235461017172 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461017173 PAS fold; Region: PAS_3; pfam08447 1235461017174 putative active site [active] 1235461017175 heme pocket [chemical binding]; other site 1235461017176 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1235461017177 HWE histidine kinase; Region: HWE_HK; pfam07536 1235461017178 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1235461017179 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 1235461017180 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 1235461017181 active site 1235461017182 catalytic residues [active] 1235461017183 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1235461017184 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461017185 ligand binding site [chemical binding]; other site 1235461017186 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1235461017187 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461017188 Walker A/P-loop; other site 1235461017189 ATP binding site [chemical binding]; other site 1235461017190 Q-loop/lid; other site 1235461017191 ABC transporter signature motif; other site 1235461017192 Walker B; other site 1235461017193 D-loop; other site 1235461017194 H-loop/switch region; other site 1235461017195 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461017196 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461017197 TM-ABC transporter signature motif; other site 1235461017198 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1235461017199 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1235461017200 protein binding site [polypeptide binding]; other site 1235461017201 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1235461017202 Active site serine [active] 1235461017203 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 1235461017204 Peptidase family M50; Region: Peptidase_M50; pfam02163 1235461017205 active site 1235461017206 putative substrate binding region [chemical binding]; other site 1235461017207 FOG: CBS domain [General function prediction only]; Region: COG0517 1235461017208 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_26; cd04639 1235461017209 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1235461017210 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 1235461017211 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461017212 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461017213 Walker A/P-loop; other site 1235461017214 ATP binding site [chemical binding]; other site 1235461017215 Q-loop/lid; other site 1235461017216 ABC transporter signature motif; other site 1235461017217 Walker B; other site 1235461017218 D-loop; other site 1235461017219 H-loop/switch region; other site 1235461017220 TOBE domain; Region: TOBE_2; pfam08402 1235461017221 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461017222 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461017223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017224 dimer interface [polypeptide binding]; other site 1235461017225 conserved gate region; other site 1235461017226 putative PBP binding loops; other site 1235461017227 ABC-ATPase subunit interface; other site 1235461017228 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461017229 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017230 dimer interface [polypeptide binding]; other site 1235461017231 conserved gate region; other site 1235461017232 putative PBP binding loops; other site 1235461017233 ABC-ATPase subunit interface; other site 1235461017234 Predicted transcriptional regulator [Transcription]; Region: COG4189 1235461017235 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461017236 putative DNA binding site [nucleotide binding]; other site 1235461017237 dimerization interface [polypeptide binding]; other site 1235461017238 putative Zn2+ binding site [ion binding]; other site 1235461017239 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1235461017240 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1235461017241 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461017242 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461017243 DNA binding site [nucleotide binding] 1235461017244 domain linker motif; other site 1235461017245 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1235461017246 ligand binding site [chemical binding]; other site 1235461017247 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461017248 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461017249 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461017250 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1235461017251 DNA interaction; other site 1235461017252 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461017253 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461017254 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461017255 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017256 dimer interface [polypeptide binding]; other site 1235461017257 conserved gate region; other site 1235461017258 putative PBP binding loops; other site 1235461017259 ABC-ATPase subunit interface; other site 1235461017260 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461017261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017262 dimer interface [polypeptide binding]; other site 1235461017263 conserved gate region; other site 1235461017264 ABC-ATPase subunit interface; other site 1235461017265 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461017266 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461017267 Walker A/P-loop; other site 1235461017268 ATP binding site [chemical binding]; other site 1235461017269 Q-loop/lid; other site 1235461017270 ABC transporter signature motif; other site 1235461017271 Walker B; other site 1235461017272 D-loop; other site 1235461017273 H-loop/switch region; other site 1235461017274 TOBE domain; Region: TOBE; cl01440 1235461017275 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461017276 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461017277 DNA-binding site [nucleotide binding]; DNA binding site 1235461017278 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461017279 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461017280 TM-ABC transporter signature motif; other site 1235461017281 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461017282 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461017283 TM-ABC transporter signature motif; other site 1235461017284 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461017285 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461017286 Walker A/P-loop; other site 1235461017287 ATP binding site [chemical binding]; other site 1235461017288 Q-loop/lid; other site 1235461017289 ABC transporter signature motif; other site 1235461017290 Walker B; other site 1235461017291 D-loop; other site 1235461017292 H-loop/switch region; other site 1235461017293 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461017294 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461017295 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1235461017296 putative ligand binding site [chemical binding]; other site 1235461017297 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1235461017298 glutathione synthetase; Provisional; Region: PRK12458 1235461017299 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1235461017300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3930 1235461017301 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1235461017302 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 1235461017303 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1235461017304 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461017305 putative ADP-binding pocket [chemical binding]; other site 1235461017306 Predicted membrane protein [Function unknown]; Region: COG1238 1235461017307 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1235461017308 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1235461017309 DNA binding residues [nucleotide binding] 1235461017310 dimer interface [polypeptide binding]; other site 1235461017311 copper binding site [ion binding]; other site 1235461017312 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1235461017313 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461017314 metal-binding site [ion binding] 1235461017315 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1235461017316 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461017317 metal-binding site [ion binding] 1235461017318 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1235461017319 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461017320 motif II; other site 1235461017321 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461017322 metal-binding site [ion binding] 1235461017323 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461017324 dimerization interface [polypeptide binding]; other site 1235461017325 putative DNA binding site [nucleotide binding]; other site 1235461017326 putative Zn2+ binding site [ion binding]; other site 1235461017327 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461017328 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1235461017329 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1235461017330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1235461017331 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1235461017332 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1235461017333 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1235461017334 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461017335 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461017336 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1235461017337 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 1235461017338 putative active site [active] 1235461017339 putative FMN binding site [chemical binding]; other site 1235461017340 putative substrate binding site [chemical binding]; other site 1235461017341 putative catalytic residue [active] 1235461017342 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461017343 Cupin domain; Region: Cupin_2; cl17218 1235461017344 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 1235461017345 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1235461017346 oligomerisation interface [polypeptide binding]; other site 1235461017347 mobile loop; other site 1235461017348 roof hairpin; other site 1235461017349 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1235461017350 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1235461017351 ring oligomerisation interface [polypeptide binding]; other site 1235461017352 ATP/Mg binding site [chemical binding]; other site 1235461017353 stacking interactions; other site 1235461017354 hinge regions; other site 1235461017355 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1235461017356 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1235461017357 active site 1235461017358 catalytic site [active] 1235461017359 substrate binding site [chemical binding]; other site 1235461017360 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1235461017361 dimer interface [polypeptide binding]; other site 1235461017362 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461017363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461017364 active site 1235461017365 phosphorylation site [posttranslational modification] 1235461017366 intermolecular recognition site; other site 1235461017367 dimerization interface [polypeptide binding]; other site 1235461017368 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461017369 DNA binding site [nucleotide binding] 1235461017370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461017371 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461017372 dimerization interface [polypeptide binding]; other site 1235461017373 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461017374 dimer interface [polypeptide binding]; other site 1235461017375 phosphorylation site [posttranslational modification] 1235461017376 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461017377 ATP binding site [chemical binding]; other site 1235461017378 G-X-G motif; other site 1235461017379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461017380 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461017381 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461017382 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461017383 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461017384 catalytic loop [active] 1235461017385 iron binding site [ion binding]; other site 1235461017386 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461017387 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1235461017388 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1235461017389 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461017390 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461017391 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461017392 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1235461017393 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1235461017394 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1235461017395 TrkA-N domain; Region: TrkA_N; pfam02254 1235461017396 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461017397 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461017398 putative active site [active] 1235461017399 putative NTP binding site [chemical binding]; other site 1235461017400 putative nucleic acid binding site [nucleotide binding]; other site 1235461017401 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461017402 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461017403 Transposase domain (DUF772); Region: DUF772; pfam05598 1235461017404 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461017405 Sulphur transport; Region: Sulf_transp; pfam04143 1235461017406 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1235461017407 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1235461017408 active site residue [active] 1235461017409 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1235461017410 active site residue [active] 1235461017411 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1235461017412 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1235461017413 Histidine kinase; Region: His_kinase; pfam06580 1235461017414 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1235461017415 ATP binding site [chemical binding]; other site 1235461017416 Mg2+ binding site [ion binding]; other site 1235461017417 G-X-G motif; other site 1235461017418 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1235461017419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461017420 active site 1235461017421 phosphorylation site [posttranslational modification] 1235461017422 intermolecular recognition site; other site 1235461017423 dimerization interface [polypeptide binding]; other site 1235461017424 LytTr DNA-binding domain; Region: LytTR; pfam04397 1235461017425 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1235461017426 active site 1235461017427 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461017428 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1235461017429 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1235461017430 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1235461017431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017432 dimer interface [polypeptide binding]; other site 1235461017433 conserved gate region; other site 1235461017434 putative PBP binding loops; other site 1235461017435 ABC-ATPase subunit interface; other site 1235461017436 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017437 dimer interface [polypeptide binding]; other site 1235461017438 conserved gate region; other site 1235461017439 putative PBP binding loops; other site 1235461017440 ABC-ATPase subunit interface; other site 1235461017441 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1235461017442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461017443 Walker A/P-loop; other site 1235461017444 ATP binding site [chemical binding]; other site 1235461017445 Q-loop/lid; other site 1235461017446 ABC transporter signature motif; other site 1235461017447 Walker B; other site 1235461017448 D-loop; other site 1235461017449 H-loop/switch region; other site 1235461017450 TOBE domain; Region: TOBE_2; pfam08402 1235461017451 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461017452 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461017453 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 1235461017454 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 1235461017455 NAD(P) binding site [chemical binding]; other site 1235461017456 catalytic residues [active] 1235461017457 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1235461017458 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1235461017459 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1235461017460 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1235461017461 catalytic residue [active] 1235461017462 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1235461017463 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1235461017464 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1235461017465 PhoU domain; Region: PhoU; pfam01895 1235461017466 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1235461017467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461017468 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461017469 dimerization interface [polypeptide binding]; other site 1235461017470 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461017471 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461017472 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1235461017473 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1235461017474 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1235461017475 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1235461017476 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1235461017477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461017478 DNA-binding site [nucleotide binding]; DNA binding site 1235461017479 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1235461017480 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1235461017481 Predicted membrane protein [Function unknown]; Region: COG2855 1235461017482 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 1235461017483 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1235461017484 PYR/PP interface [polypeptide binding]; other site 1235461017485 dimer interface [polypeptide binding]; other site 1235461017486 TPP binding site [chemical binding]; other site 1235461017487 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1235461017488 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 1235461017489 TPP-binding site; other site 1235461017490 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1235461017491 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461017492 SnoaL-like domain; Region: SnoaL_2; pfam12680 1235461017493 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1235461017494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017495 dimer interface [polypeptide binding]; other site 1235461017496 conserved gate region; other site 1235461017497 putative PBP binding loops; other site 1235461017498 ABC-ATPase subunit interface; other site 1235461017499 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 1235461017500 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1235461017501 Walker A/P-loop; other site 1235461017502 ATP binding site [chemical binding]; other site 1235461017503 Q-loop/lid; other site 1235461017504 ABC transporter signature motif; other site 1235461017505 Walker B; other site 1235461017506 D-loop; other site 1235461017507 H-loop/switch region; other site 1235461017508 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1235461017509 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461017510 substrate binding pocket [chemical binding]; other site 1235461017511 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 1235461017512 membrane-bound complex binding site; other site 1235461017513 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1235461017514 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461017515 DNA-binding site [nucleotide binding]; DNA binding site 1235461017516 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461017517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461017518 homodimer interface [polypeptide binding]; other site 1235461017519 catalytic residue [active] 1235461017520 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1235461017521 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461017522 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1235461017523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461017524 NAD(P) binding site [chemical binding]; other site 1235461017525 active site 1235461017526 short chain dehydrogenase; Provisional; Region: PRK12937 1235461017527 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1235461017528 NADP binding site [chemical binding]; other site 1235461017529 homodimer interface [polypeptide binding]; other site 1235461017530 active site 1235461017531 substrate binding site [chemical binding]; other site 1235461017532 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1235461017533 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cd00421 1235461017534 active site 1235461017535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 1235461017536 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1235461017537 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_12; cd06322 1235461017538 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461017539 putative ligand binding site [chemical binding]; other site 1235461017540 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461017541 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461017542 Walker A/P-loop; other site 1235461017543 ATP binding site [chemical binding]; other site 1235461017544 Q-loop/lid; other site 1235461017545 ABC transporter signature motif; other site 1235461017546 Walker B; other site 1235461017547 D-loop; other site 1235461017548 H-loop/switch region; other site 1235461017549 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461017550 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461017551 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461017552 TM-ABC transporter signature motif; other site 1235461017553 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461017554 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1235461017555 substrate binding site [chemical binding]; other site 1235461017556 ATP binding site [chemical binding]; other site 1235461017557 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 1235461017558 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461017559 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461017560 DNA binding site [nucleotide binding] 1235461017561 domain linker motif; other site 1235461017562 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1235461017563 dimerization interface [polypeptide binding]; other site 1235461017564 ligand binding site [chemical binding]; other site 1235461017565 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1235461017566 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1235461017567 D-pathway; other site 1235461017568 Putative ubiquinol binding site [chemical binding]; other site 1235461017569 Low-spin heme (heme b) binding site [chemical binding]; other site 1235461017570 Putative water exit pathway; other site 1235461017571 Binuclear center (heme o3/CuB) [ion binding]; other site 1235461017572 K-pathway; other site 1235461017573 Putative proton exit pathway; other site 1235461017574 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1235461017575 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1235461017576 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1235461017577 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1235461017578 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1235461017579 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1235461017580 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461017581 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461017582 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1235461017583 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1235461017584 Cytochrome c; Region: Cytochrom_C; cl11414 1235461017585 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 1235461017586 Predicted membrane protein [Function unknown]; Region: COG4244 1235461017587 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1235461017588 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1235461017589 Predicted membrane protein [Function unknown]; Region: COG2323 1235461017590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461017591 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1235461017592 catalytic triad [active] 1235461017593 conserved cis-peptide bond; other site 1235461017594 Predicted membrane protein [Function unknown]; Region: COG4244 1235461017595 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1235461017596 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461017597 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461017598 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461017599 glucuronate isomerase; Reviewed; Region: PRK02925 1235461017600 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1235461017601 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461017602 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1235461017603 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461017604 DctM-like transporters; Region: DctM; pfam06808 1235461017605 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461017606 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461017607 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461017608 DNA-binding site [nucleotide binding]; DNA binding site 1235461017609 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461017610 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1235461017611 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 1235461017612 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1235461017613 NADP binding site [chemical binding]; other site 1235461017614 homodimer interface [polypeptide binding]; other site 1235461017615 active site 1235461017616 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1235461017617 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461017618 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461017619 DNA binding site [nucleotide binding] 1235461017620 domain linker motif; other site 1235461017621 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 1235461017622 putative dimerization interface [polypeptide binding]; other site 1235461017623 putative ligand binding site [chemical binding]; other site 1235461017624 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461017625 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1235461017626 putative ligand binding site [chemical binding]; other site 1235461017627 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461017628 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461017629 Walker A/P-loop; other site 1235461017630 ATP binding site [chemical binding]; other site 1235461017631 Q-loop/lid; other site 1235461017632 ABC transporter signature motif; other site 1235461017633 Walker B; other site 1235461017634 D-loop; other site 1235461017635 H-loop/switch region; other site 1235461017636 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461017637 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461017638 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461017639 TM-ABC transporter signature motif; other site 1235461017640 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461017641 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461017642 TM-ABC transporter signature motif; other site 1235461017643 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1235461017644 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461017645 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461017646 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461017647 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1235461017648 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1235461017649 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461017650 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1235461017651 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461017652 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461017653 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461017654 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1235461017655 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1235461017656 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1235461017657 BON domain; Region: BON; cl02771 1235461017658 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1235461017659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1235461017660 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 1235461017661 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1235461017662 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1235461017663 NADP binding site [chemical binding]; other site 1235461017664 active site 1235461017665 putative substrate binding site [chemical binding]; other site 1235461017666 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1235461017667 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1235461017668 NAD binding site [chemical binding]; other site 1235461017669 substrate binding site [chemical binding]; other site 1235461017670 homodimer interface [polypeptide binding]; other site 1235461017671 active site 1235461017672 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1235461017673 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1235461017674 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1235461017675 substrate binding site; other site 1235461017676 tetramer interface; other site 1235461017677 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1235461017678 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1235461017679 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1235461017680 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1235461017681 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1235461017682 active site 1235461017683 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461017684 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1235461017685 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461017686 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 1235461017687 putative ADP-binding pocket [chemical binding]; other site 1235461017688 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1235461017689 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1235461017690 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1235461017691 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461017692 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1235461017693 Walker A/P-loop; other site 1235461017694 ATP binding site [chemical binding]; other site 1235461017695 Q-loop/lid; other site 1235461017696 ABC transporter signature motif; other site 1235461017697 Walker B; other site 1235461017698 D-loop; other site 1235461017699 H-loop/switch region; other site 1235461017700 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1235461017701 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1235461017702 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1235461017703 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461017704 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461017705 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1235461017706 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461017707 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461017708 active site 1235461017709 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461017710 S-adenosylmethionine binding site [chemical binding]; other site 1235461017711 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461017712 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1235461017713 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461017714 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1235461017715 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461017716 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 1235461017717 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1235461017718 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1235461017719 motif I; other site 1235461017720 active site 1235461017721 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1235461017722 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1235461017723 active site 1235461017724 metal binding site [ion binding]; metal-binding site 1235461017725 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1235461017726 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1235461017727 Sulfatase; Region: Sulfatase; pfam00884 1235461017728 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1235461017729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461017730 active site 1235461017731 phosphorylation site [posttranslational modification] 1235461017732 intermolecular recognition site; other site 1235461017733 dimerization interface [polypeptide binding]; other site 1235461017734 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461017735 DNA binding site [nucleotide binding] 1235461017736 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461017737 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461017738 dimer interface [polypeptide binding]; other site 1235461017739 phosphorylation site [posttranslational modification] 1235461017740 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461017741 ATP binding site [chemical binding]; other site 1235461017742 Mg2+ binding site [ion binding]; other site 1235461017743 G-X-G motif; other site 1235461017744 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461017745 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1235461017746 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1235461017747 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461017748 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461017749 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1235461017750 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1235461017751 Walker A/P-loop; other site 1235461017752 ATP binding site [chemical binding]; other site 1235461017753 Q-loop/lid; other site 1235461017754 ABC transporter signature motif; other site 1235461017755 Walker B; other site 1235461017756 D-loop; other site 1235461017757 H-loop/switch region; other site 1235461017758 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1235461017759 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1235461017760 Walker A/P-loop; other site 1235461017761 ATP binding site [chemical binding]; other site 1235461017762 Q-loop/lid; other site 1235461017763 ABC transporter signature motif; other site 1235461017764 Walker B; other site 1235461017765 D-loop; other site 1235461017766 H-loop/switch region; other site 1235461017767 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1235461017768 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1235461017769 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1235461017770 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1235461017771 Predicted esterase [General function prediction only]; Region: COG0400 1235461017772 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1235461017773 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461017774 Zn binding site [ion binding]; other site 1235461017775 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1235461017776 Zn binding site [ion binding]; other site 1235461017777 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1235461017778 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461017779 dimer interface [polypeptide binding]; other site 1235461017780 phosphorylation site [posttranslational modification] 1235461017781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461017782 ATP binding site [chemical binding]; other site 1235461017783 Mg2+ binding site [ion binding]; other site 1235461017784 G-X-G motif; other site 1235461017785 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1235461017786 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461017787 Walker A/P-loop; other site 1235461017788 ATP binding site [chemical binding]; other site 1235461017789 Q-loop/lid; other site 1235461017790 ABC transporter signature motif; other site 1235461017791 Walker B; other site 1235461017792 D-loop; other site 1235461017793 H-loop/switch region; other site 1235461017794 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1235461017795 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461017796 Walker A/P-loop; other site 1235461017797 ATP binding site [chemical binding]; other site 1235461017798 Q-loop/lid; other site 1235461017799 ABC transporter signature motif; other site 1235461017800 Walker B; other site 1235461017801 D-loop; other site 1235461017802 H-loop/switch region; other site 1235461017803 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461017804 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1235461017805 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017806 dimer interface [polypeptide binding]; other site 1235461017807 conserved gate region; other site 1235461017808 ABC-ATPase subunit interface; other site 1235461017809 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1235461017810 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017811 dimer interface [polypeptide binding]; other site 1235461017812 conserved gate region; other site 1235461017813 putative PBP binding loops; other site 1235461017814 ABC-ATPase subunit interface; other site 1235461017815 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1235461017816 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1235461017817 peptide binding site [polypeptide binding]; other site 1235461017818 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1235461017819 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1235461017820 intersubunit interface [polypeptide binding]; other site 1235461017821 active site 1235461017822 zinc binding site [ion binding]; other site 1235461017823 Na+ binding site [ion binding]; other site 1235461017824 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461017825 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1235461017826 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461017827 Walker A/P-loop; other site 1235461017828 ATP binding site [chemical binding]; other site 1235461017829 Q-loop/lid; other site 1235461017830 ABC transporter signature motif; other site 1235461017831 Walker B; other site 1235461017832 D-loop; other site 1235461017833 H-loop/switch region; other site 1235461017834 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461017835 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1235461017836 active site 1235461017837 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461017838 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461017839 active site 1235461017840 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1235461017841 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1235461017842 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1235461017843 DNA binding residues [nucleotide binding] 1235461017844 dimer interface [polypeptide binding]; other site 1235461017845 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1235461017846 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461017847 non-specific DNA binding site [nucleotide binding]; other site 1235461017848 salt bridge; other site 1235461017849 sequence-specific DNA binding site [nucleotide binding]; other site 1235461017850 Cupin domain; Region: Cupin_2; pfam07883 1235461017851 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 1235461017852 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461017853 inhibitor-cofactor binding pocket; inhibition site 1235461017854 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461017855 catalytic residue [active] 1235461017856 succinic semialdehyde dehydrogenase; Region: PLN02278 1235461017857 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1235461017858 tetramerization interface [polypeptide binding]; other site 1235461017859 NAD(P) binding site [chemical binding]; other site 1235461017860 catalytic residues [active] 1235461017861 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1235461017862 propionate/acetate kinase; Provisional; Region: PRK12379 1235461017863 heat shock protein 90; Provisional; Region: PRK05218 1235461017864 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461017865 ATP binding site [chemical binding]; other site 1235461017866 Mg2+ binding site [ion binding]; other site 1235461017867 G-X-G motif; other site 1235461017868 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1235461017869 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1235461017870 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1235461017871 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1235461017872 FAD binding site [chemical binding]; other site 1235461017873 substrate binding pocket [chemical binding]; other site 1235461017874 catalytic base [active] 1235461017875 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461017876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461017877 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1235461017878 dimerization interface [polypeptide binding]; other site 1235461017879 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1235461017880 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1235461017881 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 1235461017882 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1235461017883 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1235461017884 Walker A/P-loop; other site 1235461017885 ATP binding site [chemical binding]; other site 1235461017886 Q-loop/lid; other site 1235461017887 ABC transporter signature motif; other site 1235461017888 Walker B; other site 1235461017889 D-loop; other site 1235461017890 H-loop/switch region; other site 1235461017891 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1235461017892 Transferrin; Region: Transferrin; cl02460 1235461017893 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1235461017894 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017895 dimer interface [polypeptide binding]; other site 1235461017896 conserved gate region; other site 1235461017897 ABC-ATPase subunit interface; other site 1235461017898 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1235461017899 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017900 dimer interface [polypeptide binding]; other site 1235461017901 conserved gate region; other site 1235461017902 ABC-ATPase subunit interface; other site 1235461017903 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1235461017904 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 1235461017905 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461017906 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1235461017907 active site 1235461017908 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1235461017909 active site 1235461017910 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461017911 putative DNA binding site [nucleotide binding]; other site 1235461017912 putative Zn2+ binding site [ion binding]; other site 1235461017913 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1235461017914 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1235461017915 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461017916 putative active site [active] 1235461017917 putative NTP binding site [chemical binding]; other site 1235461017918 putative nucleic acid binding site [nucleotide binding]; other site 1235461017919 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461017920 imidazolonepropionase; Validated; Region: PRK09356 1235461017921 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1235461017922 active site 1235461017923 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1235461017924 active sites [active] 1235461017925 tetramer interface [polypeptide binding]; other site 1235461017926 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1235461017927 urocanate hydratase; Provisional; Region: PRK05414 1235461017928 sugar efflux transporter; Region: 2A0120; TIGR00899 1235461017929 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1235461017930 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1235461017931 MlrC C-terminus; Region: MlrC_C; pfam07171 1235461017932 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 1235461017933 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1235461017934 active site 1235461017935 short chain dehydrogenase; Provisional; Region: PRK07074 1235461017936 classical (c) SDRs; Region: SDR_c; cd05233 1235461017937 NAD(P) binding site [chemical binding]; other site 1235461017938 active site 1235461017939 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1235461017940 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461017941 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1235461017942 putative active site [active] 1235461017943 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461017944 homotrimer interaction site [polypeptide binding]; other site 1235461017945 putative active site [active] 1235461017946 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1235461017947 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1235461017948 MlrC C-terminus; Region: MlrC_C; pfam07171 1235461017949 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1235461017950 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461017951 active site 1235461017952 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1235461017953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461017954 Coenzyme A binding pocket [chemical binding]; other site 1235461017955 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461017956 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461017957 Walker A/P-loop; other site 1235461017958 ATP binding site [chemical binding]; other site 1235461017959 Q-loop/lid; other site 1235461017960 ABC transporter signature motif; other site 1235461017961 Walker B; other site 1235461017962 D-loop; other site 1235461017963 H-loop/switch region; other site 1235461017964 TOBE domain; Region: TOBE_2; pfam08402 1235461017965 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461017966 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461017967 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461017968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017969 dimer interface [polypeptide binding]; other site 1235461017970 conserved gate region; other site 1235461017971 putative PBP binding loops; other site 1235461017972 ABC-ATPase subunit interface; other site 1235461017973 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461017974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017975 dimer interface [polypeptide binding]; other site 1235461017976 conserved gate region; other site 1235461017977 putative PBP binding loops; other site 1235461017978 ABC-ATPase subunit interface; other site 1235461017979 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461017980 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461017981 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017982 dimer interface [polypeptide binding]; other site 1235461017983 conserved gate region; other site 1235461017984 putative PBP binding loops; other site 1235461017985 ABC-ATPase subunit interface; other site 1235461017986 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1235461017987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461017988 Walker A/P-loop; other site 1235461017989 ATP binding site [chemical binding]; other site 1235461017990 Q-loop/lid; other site 1235461017991 ABC transporter signature motif; other site 1235461017992 Walker B; other site 1235461017993 D-loop; other site 1235461017994 H-loop/switch region; other site 1235461017995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461017996 dimer interface [polypeptide binding]; other site 1235461017997 conserved gate region; other site 1235461017998 ABC-ATPase subunit interface; other site 1235461017999 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1235461018000 mercuric reductase; Validated; Region: PRK06370 1235461018001 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1235461018002 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461018003 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1235461018004 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1235461018005 Amidinotransferase; Region: Amidinotransf; cl12043 1235461018006 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1235461018007 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1235461018008 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1235461018009 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461018010 NAD(P) binding site [chemical binding]; other site 1235461018011 catalytic residues [active] 1235461018012 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1235461018013 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1235461018014 NAD(P) binding site [chemical binding]; other site 1235461018015 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1235461018016 intersubunit interface [polypeptide binding]; other site 1235461018017 active site 1235461018018 catalytic residue [active] 1235461018019 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1235461018020 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1235461018021 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1235461018022 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 1235461018023 putative binding site; other site 1235461018024 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1235461018025 MG2 domain; Region: A2M_N; pfam01835 1235461018026 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1235461018027 surface patch; other site 1235461018028 thioester region; other site 1235461018029 specificity defining residues; other site 1235461018030 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 1235461018031 Transglycosylase; Region: Transgly; pfam00912 1235461018032 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1235461018033 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1235461018034 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461018035 Repression of heat shock gene expression (ROSE) element; C770_GR4pD0780 1235461018036 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1235461018037 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1235461018038 putative dimer interface [polypeptide binding]; other site 1235461018039 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1235461018040 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1235461018041 putative dimer interface [polypeptide binding]; other site 1235461018042 guanine deaminase; Provisional; Region: PRK09228 1235461018043 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1235461018044 active site 1235461018045 Predicted membrane protein [Function unknown]; Region: COG3748 1235461018046 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1235461018047 Cytochrome c; Region: Cytochrom_C; pfam00034 1235461018048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461018049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461018050 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1235461018051 putative effector binding pocket; other site 1235461018052 dimerization interface [polypeptide binding]; other site 1235461018053 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461018054 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1235461018055 NAD(P) binding site [chemical binding]; other site 1235461018056 Predicted transcriptional regulators [Transcription]; Region: COG1733 1235461018057 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1235461018058 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1235461018059 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1235461018060 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1235461018061 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1235461018062 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461018063 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461018064 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 1235461018065 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461018066 catalytic loop [active] 1235461018067 iron binding site [ion binding]; other site 1235461018068 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461018069 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1235461018070 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1235461018071 active site 1235461018072 homotetramer interface [polypeptide binding]; other site 1235461018073 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1235461018074 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1235461018075 active site 1235461018076 catalytic site [active] 1235461018077 tetramer interface [polypeptide binding]; other site 1235461018078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1235461018079 Allantoicase [Nucleotide transport and metabolism]; Region: Alc; COG4266 1235461018080 Allantoicase repeat; Region: Allantoicase; pfam03561 1235461018081 Allantoicase repeat; Region: Allantoicase; pfam03561 1235461018082 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1235461018083 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1235461018084 phosphoribosyltransferase; Provisional; Region: PRK06031 1235461018085 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1235461018086 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1235461018087 metal binding site [ion binding]; metal-binding site 1235461018088 putative dimer interface [polypeptide binding]; other site 1235461018089 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1235461018090 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461018091 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1235461018092 active site 1235461018093 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1235461018094 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1235461018095 active site 1235461018096 tetramer interface [polypeptide binding]; other site 1235461018097 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461018098 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1235461018099 Walker A/P-loop; other site 1235461018100 ATP binding site [chemical binding]; other site 1235461018101 Q-loop/lid; other site 1235461018102 ABC transporter signature motif; other site 1235461018103 Walker B; other site 1235461018104 D-loop; other site 1235461018105 H-loop/switch region; other site 1235461018106 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461018107 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018108 dimer interface [polypeptide binding]; other site 1235461018109 conserved gate region; other site 1235461018110 putative PBP binding loops; other site 1235461018111 ABC-ATPase subunit interface; other site 1235461018112 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1235461018113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018114 dimer interface [polypeptide binding]; other site 1235461018115 conserved gate region; other site 1235461018116 putative PBP binding loops; other site 1235461018117 ABC-ATPase subunit interface; other site 1235461018118 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461018119 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461018120 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461018121 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461018122 DNA binding site [nucleotide binding] 1235461018123 domain linker motif; other site 1235461018124 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1235461018125 dimerization interface [polypeptide binding]; other site 1235461018126 ligand binding site [chemical binding]; other site 1235461018127 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1235461018128 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461018129 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461018130 ligand binding site [chemical binding]; other site 1235461018131 flexible hinge region; other site 1235461018132 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461018133 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1235461018134 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1235461018135 Walker A/P-loop; other site 1235461018136 ATP binding site [chemical binding]; other site 1235461018137 Q-loop/lid; other site 1235461018138 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1235461018139 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461018140 ABC transporter signature motif; other site 1235461018141 Walker B; other site 1235461018142 D-loop; other site 1235461018143 H-loop/switch region; other site 1235461018144 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 1235461018145 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1235461018146 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1235461018147 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018148 putative ADP-binding pocket [chemical binding]; other site 1235461018149 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 1235461018150 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 1235461018151 microcin C ABC transporter permease; Provisional; Region: PRK15021 1235461018152 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1235461018153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018154 dimer interface [polypeptide binding]; other site 1235461018155 conserved gate region; other site 1235461018156 putative PBP binding loops; other site 1235461018157 ABC-ATPase subunit interface; other site 1235461018158 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461018159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018160 dimer interface [polypeptide binding]; other site 1235461018161 conserved gate region; other site 1235461018162 putative PBP binding loops; other site 1235461018163 ABC-ATPase subunit interface; other site 1235461018164 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 1235461018165 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1235461018166 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461018167 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461018168 Walker A/P-loop; other site 1235461018169 ATP binding site [chemical binding]; other site 1235461018170 Q-loop/lid; other site 1235461018171 ABC transporter signature motif; other site 1235461018172 Walker B; other site 1235461018173 D-loop; other site 1235461018174 H-loop/switch region; other site 1235461018175 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461018176 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461018177 Walker A/P-loop; other site 1235461018178 ATP binding site [chemical binding]; other site 1235461018179 Q-loop/lid; other site 1235461018180 ABC transporter signature motif; other site 1235461018181 Walker B; other site 1235461018182 D-loop; other site 1235461018183 H-loop/switch region; other site 1235461018184 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461018185 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 1235461018186 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461018187 cyclase homology domain; Region: CHD; cd07302 1235461018188 nucleotidyl binding site; other site 1235461018189 metal binding site [ion binding]; metal-binding site 1235461018190 dimer interface [polypeptide binding]; other site 1235461018191 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1235461018192 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1235461018193 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1235461018194 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1235461018195 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 1235461018196 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1235461018197 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 1235461018198 NodB motif; other site 1235461018199 putative active site [active] 1235461018200 putative catalytic site [active] 1235461018201 putative Zn binding site [ion binding]; other site 1235461018202 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1235461018203 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018204 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1235461018205 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1235461018206 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018207 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1235461018208 putative ADP-binding pocket [chemical binding]; other site 1235461018209 sulfotransferase; Region: PLN02164 1235461018210 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1235461018211 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1235461018212 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1235461018213 inhibitor-cofactor binding pocket; inhibition site 1235461018214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461018215 catalytic residue [active] 1235461018216 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1235461018217 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1235461018218 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1235461018219 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1235461018220 SLBB domain; Region: SLBB; pfam10531 1235461018221 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1235461018222 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1235461018223 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1235461018224 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1235461018225 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018226 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1235461018227 O-Antigen ligase; Region: Wzy_C; pfam04932 1235461018228 Chain length determinant protein; Region: Wzz; pfam02706 1235461018229 Chain length determinant protein; Region: Wzz; cl15801 1235461018230 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1235461018231 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1235461018232 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1235461018233 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 1235461018234 putative active site [active] 1235461018235 putative substrate binding site [chemical binding]; other site 1235461018236 putative cosubstrate binding site; other site 1235461018237 catalytic site [active] 1235461018238 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1235461018239 active site 1235461018240 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1235461018241 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1235461018242 NAD(P) binding site [chemical binding]; other site 1235461018243 homodimer interface [polypeptide binding]; other site 1235461018244 substrate binding site [chemical binding]; other site 1235461018245 active site 1235461018246 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1235461018247 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018248 putative ADP-binding pocket [chemical binding]; other site 1235461018249 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1235461018250 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1235461018251 putative ADP-binding pocket [chemical binding]; other site 1235461018252 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461018253 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461018254 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461018255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461018256 NAD(P) binding site [chemical binding]; other site 1235461018257 active site 1235461018258 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1235461018259 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1235461018260 PHP domain; Region: PHP; pfam02811 1235461018261 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1235461018262 active site 1235461018263 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1235461018264 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1235461018265 active site 1235461018266 dimer interface [polypeptide binding]; other site 1235461018267 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1235461018268 Ligand Binding Site [chemical binding]; other site 1235461018269 Molecular Tunnel; other site 1235461018270 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461018271 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1235461018272 active site 1235461018273 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1235461018274 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1235461018275 CysD dimerization site [polypeptide binding]; other site 1235461018276 G1 box; other site 1235461018277 putative GEF interaction site [polypeptide binding]; other site 1235461018278 GTP/Mg2+ binding site [chemical binding]; other site 1235461018279 Switch I region; other site 1235461018280 G2 box; other site 1235461018281 G3 box; other site 1235461018282 Switch II region; other site 1235461018283 G4 box; other site 1235461018284 G5 box; other site 1235461018285 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1235461018286 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1235461018287 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1235461018288 ligand-binding site [chemical binding]; other site 1235461018289 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1235461018290 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1235461018291 Active Sites [active] 1235461018292 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1235461018293 non-specific DNA interactions [nucleotide binding]; other site 1235461018294 DNA binding site [nucleotide binding] 1235461018295 sequence specific DNA binding site [nucleotide binding]; other site 1235461018296 putative cAMP binding site [chemical binding]; other site 1235461018297 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1235461018298 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461018299 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461018300 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461018301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018302 dimer interface [polypeptide binding]; other site 1235461018303 conserved gate region; other site 1235461018304 putative PBP binding loops; other site 1235461018305 ABC-ATPase subunit interface; other site 1235461018306 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461018307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018308 dimer interface [polypeptide binding]; other site 1235461018309 conserved gate region; other site 1235461018310 putative PBP binding loops; other site 1235461018311 ABC-ATPase subunit interface; other site 1235461018312 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1235461018313 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1235461018314 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1235461018315 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1235461018316 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1235461018317 substrate binding site [chemical binding]; other site 1235461018318 ATP binding site [chemical binding]; other site 1235461018319 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461018320 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461018321 Walker A/P-loop; other site 1235461018322 ATP binding site [chemical binding]; other site 1235461018323 Q-loop/lid; other site 1235461018324 ABC transporter signature motif; other site 1235461018325 Walker B; other site 1235461018326 D-loop; other site 1235461018327 H-loop/switch region; other site 1235461018328 TOBE domain; Region: TOBE_2; pfam08402 1235461018329 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1235461018330 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1235461018331 Bacterial transcriptional regulator; Region: IclR; pfam01614 1235461018332 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461018333 homotrimer interaction site [polypeptide binding]; other site 1235461018334 putative active site [active] 1235461018335 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461018336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461018337 Walker A/P-loop; other site 1235461018338 ATP binding site [chemical binding]; other site 1235461018339 Q-loop/lid; other site 1235461018340 ABC transporter signature motif; other site 1235461018341 Walker B; other site 1235461018342 D-loop; other site 1235461018343 H-loop/switch region; other site 1235461018344 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018345 dimer interface [polypeptide binding]; other site 1235461018346 conserved gate region; other site 1235461018347 putative PBP binding loops; other site 1235461018348 ABC-ATPase subunit interface; other site 1235461018349 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018350 dimer interface [polypeptide binding]; other site 1235461018351 conserved gate region; other site 1235461018352 putative PBP binding loops; other site 1235461018353 ABC-ATPase subunit interface; other site 1235461018354 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461018355 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461018356 substrate binding pocket [chemical binding]; other site 1235461018357 membrane-bound complex binding site; other site 1235461018358 hinge residues; other site 1235461018359 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1235461018360 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 1235461018361 dimer interface [polypeptide binding]; other site 1235461018362 active site 1235461018363 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1235461018364 substrate binding site [chemical binding]; other site 1235461018365 catalytic residue [active] 1235461018366 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1235461018367 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1235461018368 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1235461018369 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018370 dimer interface [polypeptide binding]; other site 1235461018371 conserved gate region; other site 1235461018372 putative PBP binding loops; other site 1235461018373 ABC-ATPase subunit interface; other site 1235461018374 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018375 dimer interface [polypeptide binding]; other site 1235461018376 conserved gate region; other site 1235461018377 putative PBP binding loops; other site 1235461018378 ABC-ATPase subunit interface; other site 1235461018379 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1235461018380 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1235461018381 Walker A/P-loop; other site 1235461018382 ATP binding site [chemical binding]; other site 1235461018383 Q-loop/lid; other site 1235461018384 ABC transporter signature motif; other site 1235461018385 Walker B; other site 1235461018386 D-loop; other site 1235461018387 H-loop/switch region; other site 1235461018388 TOBE-like domain; Region: TOBE_3; pfam12857 1235461018389 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1235461018390 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461018391 Uncharacterized conserved protein [Function unknown]; Region: COG5654 1235461018392 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1235461018393 enoyl-CoA hydratase; Provisional; Region: PRK07468 1235461018394 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1235461018395 substrate binding site [chemical binding]; other site 1235461018396 oxyanion hole (OAH) forming residues; other site 1235461018397 trimer interface [polypeptide binding]; other site 1235461018398 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1235461018399 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1235461018400 active site 1235461018401 catalytic residues [active] 1235461018402 metal binding site [ion binding]; metal-binding site 1235461018403 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1235461018404 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1235461018405 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1235461018406 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1235461018407 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1235461018408 carboxyltransferase (CT) interaction site; other site 1235461018409 biotinylation site [posttranslational modification]; other site 1235461018410 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461018411 homotrimer interaction site [polypeptide binding]; other site 1235461018412 putative active site [active] 1235461018413 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1235461018414 isovaleryl-CoA dehydrogenase; Region: PLN02519 1235461018415 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1235461018416 substrate binding site [chemical binding]; other site 1235461018417 FAD binding site [chemical binding]; other site 1235461018418 catalytic base [active] 1235461018419 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1235461018420 Shikimate kinase; Region: SKI; pfam01202 1235461018421 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1235461018422 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1235461018423 non-specific DNA binding site [nucleotide binding]; other site 1235461018424 salt bridge; other site 1235461018425 sequence-specific DNA binding site [nucleotide binding]; other site 1235461018426 Uncharacterized conserved protein [Function unknown]; Region: COG3482 1235461018427 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1235461018428 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461018429 active site 1235461018430 phosphorylation site [posttranslational modification] 1235461018431 intermolecular recognition site; other site 1235461018432 ANTAR domain; Region: ANTAR; pfam03861 1235461018433 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1235461018434 NMT1-like family; Region: NMT1_2; pfam13379 1235461018435 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1235461018436 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 1235461018437 putative active site pocket [active] 1235461018438 metal binding site [ion binding]; metal-binding site 1235461018439 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1235461018440 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1235461018441 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1235461018442 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1235461018443 NAD binding site [chemical binding]; other site 1235461018444 homotetramer interface [polypeptide binding]; other site 1235461018445 homodimer interface [polypeptide binding]; other site 1235461018446 active site 1235461018447 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1235461018448 active site 2 [active] 1235461018449 active site 1 [active] 1235461018450 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461018451 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461018452 Uncharacterized conserved protein [Function unknown]; Region: COG3254 1235461018453 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1235461018454 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1235461018455 active site pocket [active] 1235461018456 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461018457 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461018458 Walker A/P-loop; other site 1235461018459 ATP binding site [chemical binding]; other site 1235461018460 Q-loop/lid; other site 1235461018461 ABC transporter signature motif; other site 1235461018462 Walker B; other site 1235461018463 D-loop; other site 1235461018464 H-loop/switch region; other site 1235461018465 TOBE domain; Region: TOBE_2; pfam08402 1235461018466 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461018467 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018468 dimer interface [polypeptide binding]; other site 1235461018469 conserved gate region; other site 1235461018470 putative PBP binding loops; other site 1235461018471 ABC-ATPase subunit interface; other site 1235461018472 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461018473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018474 dimer interface [polypeptide binding]; other site 1235461018475 conserved gate region; other site 1235461018476 putative PBP binding loops; other site 1235461018477 ABC-ATPase subunit interface; other site 1235461018478 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461018479 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461018480 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1235461018481 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461018482 putative DNA binding site [nucleotide binding]; other site 1235461018483 putative Zn2+ binding site [ion binding]; other site 1235461018484 Bacterial transcriptional regulator; Region: IclR; pfam01614 1235461018485 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1235461018486 Amidohydrolase; Region: Amidohydro_2; pfam04909 1235461018487 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1235461018488 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 1235461018489 active site 1235461018490 catalytic site [active] 1235461018491 Zn binding site [ion binding]; other site 1235461018492 tetramer interface [polypeptide binding]; other site 1235461018493 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1235461018494 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461018495 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461018496 substrate binding pocket [chemical binding]; other site 1235461018497 membrane-bound complex binding site; other site 1235461018498 hinge residues; other site 1235461018499 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461018500 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1235461018501 Walker A/P-loop; other site 1235461018502 ATP binding site [chemical binding]; other site 1235461018503 Q-loop/lid; other site 1235461018504 ABC transporter signature motif; other site 1235461018505 Walker B; other site 1235461018506 D-loop; other site 1235461018507 H-loop/switch region; other site 1235461018508 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461018509 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018510 dimer interface [polypeptide binding]; other site 1235461018511 conserved gate region; other site 1235461018512 putative PBP binding loops; other site 1235461018513 ABC-ATPase subunit interface; other site 1235461018514 argininosuccinate lyase; Provisional; Region: PRK00855 1235461018515 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1235461018516 active sites [active] 1235461018517 tetramer interface [polypeptide binding]; other site 1235461018518 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1235461018519 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461018520 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1235461018521 dimerization interface [polypeptide binding]; other site 1235461018522 substrate binding pocket [chemical binding]; other site 1235461018523 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461018524 Coenzyme A binding pocket [chemical binding]; other site 1235461018525 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1235461018526 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 1235461018527 active site 1235461018528 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461018529 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1235461018530 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1235461018531 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 1235461018532 MobA/MobL family; Region: MobA_MobL; pfam03389 1235461018533 AAA domain; Region: AAA_30; pfam13604 1235461018534 Family description; Region: UvrD_C_2; pfam13538 1235461018535 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461018536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018537 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461018538 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461018539 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461018540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018541 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461018542 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1235461018543 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1235461018544 Substrate binding site; other site 1235461018545 Cupin domain; Region: Cupin_2; cl17218 1235461018546 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1235461018547 dimerization interface [polypeptide binding]; other site 1235461018548 putative active cleft [active] 1235461018549 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1235461018550 active site 1235461018551 substrate binding site [chemical binding]; other site 1235461018552 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1235461018553 metal binding site [ion binding]; metal-binding site 1235461018554 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461018555 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461018556 DNA binding residues [nucleotide binding] 1235461018557 dimerization interface [polypeptide binding]; other site 1235461018558 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461018559 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461018560 ligand binding site [chemical binding]; other site 1235461018561 flexible hinge region; other site 1235461018562 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1235461018563 putative switch regulator; other site 1235461018564 non-specific DNA interactions [nucleotide binding]; other site 1235461018565 DNA binding site [nucleotide binding] 1235461018566 sequence specific DNA binding site [nucleotide binding]; other site 1235461018567 putative cAMP binding site [chemical binding]; other site 1235461018568 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018569 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1235461018570 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1235461018571 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018572 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1235461018573 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018574 putative ADP-binding pocket [chemical binding]; other site 1235461018575 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461018576 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1235461018577 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1235461018578 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1235461018579 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1235461018580 AAA domain; Region: AAA_31; pfam13614 1235461018581 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1235461018582 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 1235461018583 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1235461018584 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1235461018585 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1235461018586 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461018587 active site 1235461018588 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461018589 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461018590 S-adenosylmethionine binding site [chemical binding]; other site 1235461018591 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1235461018592 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461018593 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1235461018594 active site 1235461018595 Protein of unknown function (DUF707); Region: DUF707; pfam05212 1235461018596 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461018597 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461018598 S-adenosylmethionine binding site [chemical binding]; other site 1235461018599 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1235461018600 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1235461018601 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461018602 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1235461018603 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1235461018604 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1235461018605 extended (e) SDRs; Region: SDR_e; cd08946 1235461018606 NAD(P) binding site [chemical binding]; other site 1235461018607 active site 1235461018608 substrate binding site [chemical binding]; other site 1235461018609 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1235461018610 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1235461018611 substrate binding site; other site 1235461018612 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1235461018613 Family description; Region: VCBS; pfam13517 1235461018614 Family description; Region: VCBS; pfam13517 1235461018615 Family description; Region: VCBS; pfam13517 1235461018616 Family description; Region: VCBS; pfam13517 1235461018617 Family description; Region: VCBS; pfam13517 1235461018618 Family description; Region: VCBS; pfam13517 1235461018619 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1235461018620 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461018621 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461018622 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461018623 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1235461018624 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461018625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461018626 NAD(P) binding site [chemical binding]; other site 1235461018627 active site 1235461018628 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1235461018629 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1235461018630 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1235461018631 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1235461018632 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1235461018633 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461018634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018635 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461018636 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461018637 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461018638 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018639 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461018640 Transposase; Region: HTH_Tnp_1; cl17663 1235461018641 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461018642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1235461018643 active site 1235461018644 phosphorylation site [posttranslational modification] 1235461018645 intermolecular recognition site; other site 1235461018646 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461018647 DNA binding residues [nucleotide binding] 1235461018648 dimerization interface [polypeptide binding]; other site 1235461018649 acyl carrier protein; Provisional; Region: acpP; PRK00982 1235461018650 GXWXG protein; Region: GXWXG; pfam14231 1235461018651 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 1235461018652 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1235461018653 metal ion-dependent adhesion site (MIDAS); other site 1235461018654 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461018655 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461018656 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1235461018657 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1235461018658 LabA_like proteins; Region: LabA; cd10911 1235461018659 putative metal binding site [ion binding]; other site 1235461018660 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461018661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018662 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461018663 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461018664 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461018665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018666 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461018667 YfbU domain; Region: YfbU; cl01137 1235461018668 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1235461018669 Staphylococcal nuclease homologues; Region: SNc; smart00318 1235461018670 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1235461018671 Catalytic site; other site 1235461018672 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1235461018673 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1235461018674 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1235461018675 Acid Phosphatase; Region: Acid_PPase; cl17256 1235461018676 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461018677 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1235461018678 active site 1235461018679 DNA binding site [nucleotide binding] 1235461018680 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 1235461018681 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1235461018682 DNA binding site [nucleotide binding] 1235461018683 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1235461018684 nucleotide binding site [chemical binding]; other site 1235461018685 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1235461018686 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1235461018687 metal binding site [ion binding]; metal-binding site 1235461018688 dimer interface [polypeptide binding]; other site 1235461018689 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1235461018690 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 1235461018691 putative active site [active] 1235461018692 putative metal binding site [ion binding]; other site 1235461018693 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1235461018694 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461018695 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461018696 Walker A/P-loop; other site 1235461018697 ATP binding site [chemical binding]; other site 1235461018698 Q-loop/lid; other site 1235461018699 ABC transporter signature motif; other site 1235461018700 Walker B; other site 1235461018701 D-loop; other site 1235461018702 H-loop/switch region; other site 1235461018703 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461018704 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461018705 Walker A/P-loop; other site 1235461018706 ATP binding site [chemical binding]; other site 1235461018707 Q-loop/lid; other site 1235461018708 ABC transporter signature motif; other site 1235461018709 Walker B; other site 1235461018710 D-loop; other site 1235461018711 H-loop/switch region; other site 1235461018712 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461018713 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018714 dimer interface [polypeptide binding]; other site 1235461018715 conserved gate region; other site 1235461018716 putative PBP binding loops; other site 1235461018717 ABC-ATPase subunit interface; other site 1235461018718 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461018719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461018720 dimer interface [polypeptide binding]; other site 1235461018721 conserved gate region; other site 1235461018722 putative PBP binding loops; other site 1235461018723 ABC-ATPase subunit interface; other site 1235461018724 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461018725 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 1235461018726 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1235461018727 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 1235461018728 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 1235461018729 putative N- and C-terminal domain interface [polypeptide binding]; other site 1235461018730 putative active site [active] 1235461018731 putative MgATP binding site [chemical binding]; other site 1235461018732 catalytic site [active] 1235461018733 metal binding site [ion binding]; metal-binding site 1235461018734 putative carbohydrate binding site [chemical binding]; other site 1235461018735 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461018736 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1235461018737 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1235461018738 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1235461018739 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461018740 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461018741 TM-ABC transporter signature motif; other site 1235461018742 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461018743 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461018744 TM-ABC transporter signature motif; other site 1235461018745 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 1235461018746 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1235461018747 Uncharacterized conserved protein [Function unknown]; Region: COG3347 1235461018748 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 1235461018749 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 1235461018750 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1235461018751 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 1235461018752 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1235461018753 AAA domain; Region: AAA_11; pfam13086 1235461018754 Part of AAA domain; Region: AAA_19; pfam13245 1235461018755 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1235461018756 AAA domain; Region: AAA_12; pfam13087 1235461018757 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 1235461018758 putative active site [active] 1235461018759 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 1235461018760 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1235461018761 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1235461018762 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1235461018763 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1235461018764 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 1235461018765 Walker A/P-loop; other site 1235461018766 ATP binding site [chemical binding]; other site 1235461018767 Q-loop/lid; other site 1235461018768 ABC transporter signature motif; other site 1235461018769 Walker B; other site 1235461018770 D-loop; other site 1235461018771 H-loop/switch region; other site 1235461018772 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 1235461018773 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 1235461018774 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018775 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461018776 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461018777 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461018778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018779 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461018780 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1235461018781 Transposase; Region: HTH_Tnp_1; pfam01527 1235461018782 GSCFA family; Region: GSCFA; pfam08885 1235461018783 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1235461018784 putative glycosyl transferase; Provisional; Region: PRK10018 1235461018785 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1235461018786 active site 1235461018787 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1235461018788 putative ADP-binding pocket [chemical binding]; other site 1235461018789 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461018790 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461018791 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461018792 S-adenosylmethionine binding site [chemical binding]; other site 1235461018793 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1235461018794 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1235461018795 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1235461018796 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1235461018797 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1235461018798 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1235461018799 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1235461018800 Ketopantoate hydroxymethyltransferase [Coenzyme metabolism]; Region: PanB; COG0413 1235461018801 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1235461018802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461018803 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1235461018804 [2Fe-2S] cluster binding site [ion binding]; other site 1235461018805 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1235461018806 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 1235461018807 putative di-iron ligands [ion binding]; other site 1235461018808 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461018809 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461018810 DNA binding site [nucleotide binding] 1235461018811 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1235461018812 putative ligand binding site [chemical binding]; other site 1235461018813 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1235461018814 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1235461018815 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1235461018816 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1235461018817 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1235461018818 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1235461018819 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1235461018820 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1235461018821 Walker A/P-loop; other site 1235461018822 ATP binding site [chemical binding]; other site 1235461018823 Q-loop/lid; other site 1235461018824 ABC transporter signature motif; other site 1235461018825 Walker B; other site 1235461018826 D-loop; other site 1235461018827 H-loop/switch region; other site 1235461018828 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1235461018829 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1235461018830 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1235461018831 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1235461018832 putative active site [active] 1235461018833 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1235461018834 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1235461018835 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1235461018836 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461018837 active site 1235461018838 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1235461018839 Glycosyltransferase family 92; Region: Glyco_transf_92; pfam01697 1235461018840 active site 1235461018841 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1235461018842 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1235461018843 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1235461018844 metal-binding site [ion binding] 1235461018845 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1235461018846 dimer interface [polypeptide binding]; other site 1235461018847 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1235461018848 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1235461018849 ligand binding site [chemical binding]; other site 1235461018850 flexible hinge region; other site 1235461018851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1235461018852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4333 1235461018853 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1235461018854 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1235461018855 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018856 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1235461018857 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1235461018858 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1235461018859 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1235461018860 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1235461018861 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1235461018862 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461018863 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461018864 Transcriptional activator, adenine-specific DNA methyltransferase [Signal transduction mechanisms / Transcription]; Region: IME4; COG4725 1235461018865 Protein of unknown function (DUF982); Region: DUF982; pfam06169 1235461018866 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1235461018867 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461018868 cyclase homology domain; Region: CHD; cd07302 1235461018869 nucleotidyl binding site; other site 1235461018870 metal binding site [ion binding]; metal-binding site 1235461018871 dimer interface [polypeptide binding]; other site 1235461018872 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461018873 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461018874 TPR motif; other site 1235461018875 TPR repeat; Region: TPR_11; pfam13414 1235461018876 binding surface 1235461018877 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461018878 binding surface 1235461018879 TPR motif; other site 1235461018880 Ribosomal_L32_L32e: L32 is a protein from the large subunit that contains a surface-exposed globular domain and a finger-like projection that extends into the RNA core to stabilize the tertiary structure. L32 does not appear to play a role in forming the...; Region: Ribosomal_L32_L32e; cl00748 1235461018881 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461018882 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461018883 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461018884 DNA binding site [nucleotide binding] 1235461018885 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461018886 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1235461018887 ligand binding site [chemical binding]; other site 1235461018888 dimerization interface [polypeptide binding]; other site 1235461018889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4289 1235461018890 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 1235461018891 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1235461018892 putative ligand binding site [chemical binding]; other site 1235461018893 putative NAD binding site [chemical binding]; other site 1235461018894 catalytic site [active] 1235461018895 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1235461018896 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1235461018897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 1235461018898 RNA polymerase sigma factor; Provisional; Region: PRK12512 1235461018899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1235461018900 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461018901 DNA binding residues [nucleotide binding] 1235461018902 Predicted integral membrane protein [Function unknown]; Region: COG5572 1235461018903 hypothetical protein; Provisional; Region: PRK05409 1235461018904 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1235461018905 YCII-related domain; Region: YCII; cl00999 1235461018906 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461018907 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461018908 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461018909 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461018910 metal binding site [ion binding]; metal-binding site 1235461018911 active site 1235461018912 I-site; other site 1235461018913 PRC-barrel domain; Region: PRC; pfam05239 1235461018914 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1235461018915 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1235461018916 Protein of unknown function (DUF1515); Region: DUF1515; pfam07439 1235461018917 response regulator; Provisional; Region: PRK13435 1235461018918 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1235461018919 CheB methylesterase; Region: CheB_methylest; pfam01339 1235461018920 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1235461018921 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1235461018922 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1235461018923 PAS domain; Region: PAS_10; pfam13596 1235461018924 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461018925 putative active site [active] 1235461018926 heme pocket [chemical binding]; other site 1235461018927 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1235461018928 PAS domain; Region: PAS_9; pfam13426 1235461018929 putative active site [active] 1235461018930 heme pocket [chemical binding]; other site 1235461018931 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1235461018932 HWE histidine kinase; Region: HWE_HK; pfam07536 1235461018933 CheB methylesterase; Region: CheB_methylest; pfam01339 1235461018934 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 1235461018935 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 1235461018936 short chain dehydrogenase; Provisional; Region: PRK07063 1235461018937 classical (c) SDRs; Region: SDR_c; cd05233 1235461018938 NAD(P) binding site [chemical binding]; other site 1235461018939 active site 1235461018940 galactonate dehydratase; Provisional; Region: PRK14017 1235461018941 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 1235461018942 putative active site pocket [active] 1235461018943 putative metal binding site [ion binding]; other site 1235461018944 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461018945 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461018946 DNA-binding site [nucleotide binding]; DNA binding site 1235461018947 FCD domain; Region: FCD; pfam07729 1235461018948 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 1235461018949 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1235461018950 ligand binding site [chemical binding]; other site 1235461018951 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1235461018952 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461018953 Walker A/P-loop; other site 1235461018954 ATP binding site [chemical binding]; other site 1235461018955 Q-loop/lid; other site 1235461018956 ABC transporter signature motif; other site 1235461018957 Walker B; other site 1235461018958 D-loop; other site 1235461018959 H-loop/switch region; other site 1235461018960 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461018961 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461018962 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461018963 TM-ABC transporter signature motif; other site 1235461018964 Phosphotransferase enzyme family; Region: APH; pfam01636 1235461018965 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1235461018966 active site 1235461018967 ATP binding site [chemical binding]; other site 1235461018968 substrate binding site [chemical binding]; other site 1235461018969 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1235461018970 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1235461018971 ligand binding site [chemical binding]; other site 1235461018972 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461018973 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461018974 Walker A/P-loop; other site 1235461018975 ATP binding site [chemical binding]; other site 1235461018976 Q-loop/lid; other site 1235461018977 ABC transporter signature motif; other site 1235461018978 Walker B; other site 1235461018979 D-loop; other site 1235461018980 H-loop/switch region; other site 1235461018981 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461018982 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461018983 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461018984 TM-ABC transporter signature motif; other site 1235461018985 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1235461018986 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461018987 DNA binding residues [nucleotide binding] 1235461018988 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1235461018989 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1235461018990 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1235461018991 active site 1235461018992 catalytic tetrad [active] 1235461018993 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1235461018994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1235461018995 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1235461018996 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1235461018997 putative active site; other site 1235461018998 catalytic residue [active] 1235461018999 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1235461019000 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1235461019001 putative N- and C-terminal domain interface [polypeptide binding]; other site 1235461019002 putative active site [active] 1235461019003 MgATP binding site [chemical binding]; other site 1235461019004 catalytic site [active] 1235461019005 metal binding site [ion binding]; metal-binding site 1235461019006 putative xylulose binding site [chemical binding]; other site 1235461019007 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1235461019008 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1235461019009 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1235461019010 TPR repeat; Region: TPR_11; pfam13414 1235461019011 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461019012 TPR motif; other site 1235461019013 binding surface 1235461019014 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 1235461019015 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1235461019016 putative effector binding pocket; other site 1235461019017 putative dimerization interface [polypeptide binding]; other site 1235461019018 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1235461019019 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1235461019020 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1235461019021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461019022 short chain dehydrogenase; Provisional; Region: PRK12937 1235461019023 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1235461019024 NADP binding site [chemical binding]; other site 1235461019025 homodimer interface [polypeptide binding]; other site 1235461019026 active site 1235461019027 substrate binding site [chemical binding]; other site 1235461019028 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1235461019029 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1235461019030 NADP binding site [chemical binding]; other site 1235461019031 active site 1235461019032 steroid binding site; other site 1235461019033 Isochorismatase family; Region: Isochorismatase; pfam00857 1235461019034 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1235461019035 catalytic triad [active] 1235461019036 conserved cis-peptide bond; other site 1235461019037 Bacterial protein of unknown function (DUF899); Region: DUF899; cl17828 1235461019038 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1235461019039 intersubunit interface [polypeptide binding]; other site 1235461019040 active site 1235461019041 Zn2+ binding site [ion binding]; other site 1235461019042 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1235461019043 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 1235461019044 N- and C-terminal domain interface [polypeptide binding]; other site 1235461019045 putative active site [active] 1235461019046 putative MgATP binding site [chemical binding]; other site 1235461019047 putative catalytic site [active] 1235461019048 metal binding site [ion binding]; metal-binding site 1235461019049 putative carbohydrate binding site [chemical binding]; other site 1235461019050 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1235461019051 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1235461019052 DNA interaction; other site 1235461019053 Metal-binding active site; metal-binding site 1235461019054 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461019055 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461019056 TM-ABC transporter signature motif; other site 1235461019057 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461019058 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461019059 TM-ABC transporter signature motif; other site 1235461019060 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461019061 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461019062 Walker A/P-loop; other site 1235461019063 ATP binding site [chemical binding]; other site 1235461019064 Q-loop/lid; other site 1235461019065 ABC transporter signature motif; other site 1235461019066 Walker B; other site 1235461019067 D-loop; other site 1235461019068 H-loop/switch region; other site 1235461019069 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461019070 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1235461019071 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461019072 ligand binding site [chemical binding]; other site 1235461019073 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461019074 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1235461019075 dimerization interface [polypeptide binding]; other site 1235461019076 ligand binding site [chemical binding]; other site 1235461019077 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1235461019078 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1235461019079 Coenzyme A binding pocket [chemical binding]; other site 1235461019080 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1235461019081 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1235461019082 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1235461019083 active site 1235461019084 dimer interface [polypeptide binding]; other site 1235461019085 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1235461019086 Ligand Binding Site [chemical binding]; other site 1235461019087 Molecular Tunnel; other site 1235461019088 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461019089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461019090 DNA-binding site [nucleotide binding]; DNA binding site 1235461019091 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461019092 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1235461019093 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461019094 Walker A/P-loop; other site 1235461019095 ATP binding site [chemical binding]; other site 1235461019096 Q-loop/lid; other site 1235461019097 ABC transporter signature motif; other site 1235461019098 Walker B; other site 1235461019099 D-loop; other site 1235461019100 H-loop/switch region; other site 1235461019101 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461019102 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1235461019103 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019104 dimer interface [polypeptide binding]; other site 1235461019105 conserved gate region; other site 1235461019106 putative PBP binding loops; other site 1235461019107 ABC-ATPase subunit interface; other site 1235461019108 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1235461019109 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461019110 Walker A/P-loop; other site 1235461019111 ATP binding site [chemical binding]; other site 1235461019112 Q-loop/lid; other site 1235461019113 ABC transporter signature motif; other site 1235461019114 Walker B; other site 1235461019115 D-loop; other site 1235461019116 H-loop/switch region; other site 1235461019117 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1235461019118 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461019119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019120 dimer interface [polypeptide binding]; other site 1235461019121 conserved gate region; other site 1235461019122 putative PBP binding loops; other site 1235461019123 ABC-ATPase subunit interface; other site 1235461019124 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461019125 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1235461019126 peptide binding site [polypeptide binding]; other site 1235461019127 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1235461019128 dimer interface [polypeptide binding]; other site 1235461019129 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 1235461019130 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1235461019131 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1235461019132 putative oligomer interface [polypeptide binding]; other site 1235461019133 putative active site [active] 1235461019134 metal binding site [ion binding]; metal-binding site 1235461019135 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1235461019136 nucleotide binding site [chemical binding]; other site 1235461019137 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1235461019138 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 1235461019139 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1235461019140 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1235461019141 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1235461019142 active site 1235461019143 Cellulose synthase-like protein; Region: PLN02893 1235461019144 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1235461019145 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1235461019146 NAD binding site [chemical binding]; other site 1235461019147 homodimer interface [polypeptide binding]; other site 1235461019148 active site 1235461019149 substrate binding site [chemical binding]; other site 1235461019150 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461019151 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1235461019152 NAD binding site [chemical binding]; other site 1235461019153 putative substrate binding site 2 [chemical binding]; other site 1235461019154 putative substrate binding site 1 [chemical binding]; other site 1235461019155 active site 1235461019156 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1235461019157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461019158 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1235461019159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461019160 NAD(P) binding site [chemical binding]; other site 1235461019161 active site 1235461019162 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461019163 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461019164 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 1235461019165 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1235461019166 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1235461019167 anti sigma factor interaction site; other site 1235461019168 regulatory phosphorylation site [posttranslational modification]; other site 1235461019169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 1235461019170 Cache domain; Region: Cache_1; pfam02743 1235461019171 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461019172 dimerization interface [polypeptide binding]; other site 1235461019173 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1235461019174 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1235461019175 Uncharacterized conserved protein [Function unknown]; Region: COG5439 1235461019176 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1235461019177 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461019178 S-adenosylmethionine binding site [chemical binding]; other site 1235461019179 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461019180 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461019181 metal binding site [ion binding]; metal-binding site 1235461019182 active site 1235461019183 I-site; other site 1235461019184 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1235461019185 mannonate dehydratase; Provisional; Region: PRK03906 1235461019186 mannonate dehydratase; Region: uxuA; TIGR00695 1235461019187 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 1235461019188 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 1235461019189 putative NAD(P) binding site [chemical binding]; other site 1235461019190 catalytic Zn binding site [ion binding]; other site 1235461019191 DctM-like transporters; Region: DctM; pfam06808 1235461019192 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461019193 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461019194 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461019195 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1235461019196 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461019197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461019198 DNA-binding site [nucleotide binding]; DNA binding site 1235461019199 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1235461019200 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 1235461019201 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1235461019202 putative active site [active] 1235461019203 Zn binding site [ion binding]; other site 1235461019204 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 1235461019205 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1235461019206 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1235461019207 active site 1235461019208 ectoine utilization protein EutC; Validated; Region: PRK08291 1235461019209 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1235461019210 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1235461019211 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1235461019212 tetramer interface [polypeptide binding]; other site 1235461019213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461019214 catalytic residue [active] 1235461019215 ectoine utilization protein EutA; Region: ectoine_eutA; TIGR02990 1235461019216 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461019217 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019218 dimer interface [polypeptide binding]; other site 1235461019219 conserved gate region; other site 1235461019220 putative PBP binding loops; other site 1235461019221 ABC-ATPase subunit interface; other site 1235461019222 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461019223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019224 dimer interface [polypeptide binding]; other site 1235461019225 conserved gate region; other site 1235461019226 putative PBP binding loops; other site 1235461019227 ABC-ATPase subunit interface; other site 1235461019228 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1235461019229 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461019230 substrate binding pocket [chemical binding]; other site 1235461019231 membrane-bound complex binding site; other site 1235461019232 hinge residues; other site 1235461019233 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1235461019234 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1235461019235 Walker A/P-loop; other site 1235461019236 ATP binding site [chemical binding]; other site 1235461019237 Q-loop/lid; other site 1235461019238 ABC transporter signature motif; other site 1235461019239 Walker B; other site 1235461019240 D-loop; other site 1235461019241 H-loop/switch region; other site 1235461019242 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1235461019243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461019244 DNA-binding site [nucleotide binding]; DNA binding site 1235461019245 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1235461019246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461019247 homodimer interface [polypeptide binding]; other site 1235461019248 catalytic residue [active] 1235461019249 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1235461019250 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1235461019251 putative DNA binding site [nucleotide binding]; other site 1235461019252 putative Zn2+ binding site [ion binding]; other site 1235461019253 AsnC family; Region: AsnC_trans_reg; pfam01037 1235461019254 succinic semialdehyde dehydrogenase; Region: PLN02278 1235461019255 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1235461019256 tetramerization interface [polypeptide binding]; other site 1235461019257 NAD(P) binding site [chemical binding]; other site 1235461019258 catalytic residues [active] 1235461019259 hypothetical protein; Provisional; Region: PRK07482 1235461019260 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461019261 inhibitor-cofactor binding pocket; inhibition site 1235461019262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461019263 catalytic residue [active] 1235461019264 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 1235461019265 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461019266 putative NAD(P) binding site [chemical binding]; other site 1235461019267 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1235461019268 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1235461019269 putative C-terminal domain interface [polypeptide binding]; other site 1235461019270 putative GSH binding site (G-site) [chemical binding]; other site 1235461019271 putative dimer interface [polypeptide binding]; other site 1235461019272 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1235461019273 dimer interface [polypeptide binding]; other site 1235461019274 N-terminal domain interface [polypeptide binding]; other site 1235461019275 putative substrate binding pocket (H-site) [chemical binding]; other site 1235461019276 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461019277 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461019278 Walker A/P-loop; other site 1235461019279 ATP binding site [chemical binding]; other site 1235461019280 Q-loop/lid; other site 1235461019281 ABC transporter signature motif; other site 1235461019282 Walker B; other site 1235461019283 D-loop; other site 1235461019284 H-loop/switch region; other site 1235461019285 TOBE domain; Region: TOBE_2; pfam08402 1235461019286 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461019287 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019288 dimer interface [polypeptide binding]; other site 1235461019289 conserved gate region; other site 1235461019290 ABC-ATPase subunit interface; other site 1235461019291 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1235461019292 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019293 dimer interface [polypeptide binding]; other site 1235461019294 conserved gate region; other site 1235461019295 putative PBP binding loops; other site 1235461019296 ABC-ATPase subunit interface; other site 1235461019297 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1235461019298 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461019299 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1235461019300 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1235461019301 putative NAD(P) binding site [chemical binding]; other site 1235461019302 active site 1235461019303 DoxX-like family; Region: DoxX_3; pfam13781 1235461019304 Predicted integral membrane protein [Function unknown]; Region: COG5528 1235461019305 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461019306 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461019307 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461019308 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461019309 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461019310 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461019311 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461019312 catalytic loop [active] 1235461019313 iron binding site [ion binding]; other site 1235461019314 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461019315 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461019316 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461019317 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1235461019318 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 1235461019319 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 1235461019320 putative active site [active] 1235461019321 putative metal binding site [ion binding]; other site 1235461019322 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461019323 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461019324 catalytic loop [active] 1235461019325 iron binding site [ion binding]; other site 1235461019326 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461019327 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1235461019328 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1235461019329 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461019330 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461019331 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461019332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1235461019333 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 1235461019334 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 1235461019335 dimer interface [polypeptide binding]; other site 1235461019336 active site 1235461019337 catalytic residue [active] 1235461019338 metal binding site [ion binding]; metal-binding site 1235461019339 transcriptional regulator NanR; Provisional; Region: PRK03837 1235461019340 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461019341 DNA-binding site [nucleotide binding]; DNA binding site 1235461019342 Ribosomal protein S19e; Region: Ribosomal_S19e; cl00969 1235461019343 FCD domain; Region: FCD; pfam07729 1235461019344 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1235461019345 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1235461019346 DXD motif; other site 1235461019347 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1235461019348 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461019349 GAF domain; Region: GAF; pfam01590 1235461019350 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1235461019351 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1235461019352 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1235461019353 metal binding site [ion binding]; metal-binding site 1235461019354 active site 1235461019355 I-site; other site 1235461019356 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 1235461019357 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1235461019358 NAD(P) binding site [chemical binding]; other site 1235461019359 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1235461019360 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1235461019361 Bacterial transcriptional regulator; Region: IclR; pfam01614 1235461019362 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1235461019363 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1235461019364 active site 1235461019365 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461019366 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461019367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019368 dimer interface [polypeptide binding]; other site 1235461019369 putative PBP binding loops; other site 1235461019370 ABC-ATPase subunit interface; other site 1235461019371 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461019372 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019373 dimer interface [polypeptide binding]; other site 1235461019374 conserved gate region; other site 1235461019375 putative PBP binding loops; other site 1235461019376 ABC-ATPase subunit interface; other site 1235461019377 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461019378 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1235461019379 Walker A/P-loop; other site 1235461019380 ATP binding site [chemical binding]; other site 1235461019381 Q-loop/lid; other site 1235461019382 ABC transporter signature motif; other site 1235461019383 Walker B; other site 1235461019384 D-loop; other site 1235461019385 H-loop/switch region; other site 1235461019386 aminotransferase; Provisional; Region: PRK06105 1235461019387 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461019388 inhibitor-cofactor binding pocket; inhibition site 1235461019389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461019390 catalytic residue [active] 1235461019391 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1235461019392 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1235461019393 tetramerization interface [polypeptide binding]; other site 1235461019394 NAD(P) binding site [chemical binding]; other site 1235461019395 catalytic residues [active] 1235461019396 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461019397 homotrimer interaction site [polypeptide binding]; other site 1235461019398 putative active site [active] 1235461019399 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461019400 homotrimer interaction site [polypeptide binding]; other site 1235461019401 putative active site [active] 1235461019402 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461019403 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461019404 DNA-binding site [nucleotide binding]; DNA binding site 1235461019405 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461019406 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461019407 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1235461019408 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461019409 DctM-like transporters; Region: DctM; pfam06808 1235461019410 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461019411 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1235461019412 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1235461019413 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1235461019414 Walker A/P-loop; other site 1235461019415 ATP binding site [chemical binding]; other site 1235461019416 Q-loop/lid; other site 1235461019417 ABC transporter signature motif; other site 1235461019418 Walker B; other site 1235461019419 D-loop; other site 1235461019420 H-loop/switch region; other site 1235461019421 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1235461019422 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1235461019423 FtsX-like permease family; Region: FtsX; pfam02687 1235461019424 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461019425 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461019426 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461019427 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461019428 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461019429 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461019430 DNA binding site [nucleotide binding] 1235461019431 domain linker motif; other site 1235461019432 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 1235461019433 putative dimerization interface [polypeptide binding]; other site 1235461019434 putative ligand binding site [chemical binding]; other site 1235461019435 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461019436 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461019437 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1235461019438 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019439 dimer interface [polypeptide binding]; other site 1235461019440 conserved gate region; other site 1235461019441 putative PBP binding loops; other site 1235461019442 ABC-ATPase subunit interface; other site 1235461019443 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019444 dimer interface [polypeptide binding]; other site 1235461019445 conserved gate region; other site 1235461019446 putative PBP binding loops; other site 1235461019447 ABC-ATPase subunit interface; other site 1235461019448 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461019449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461019450 Walker A/P-loop; other site 1235461019451 ATP binding site [chemical binding]; other site 1235461019452 Q-loop/lid; other site 1235461019453 ABC transporter signature motif; other site 1235461019454 Walker B; other site 1235461019455 D-loop; other site 1235461019456 H-loop/switch region; other site 1235461019457 TOBE domain; Region: TOBE_2; pfam08402 1235461019458 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461019459 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 1235461019460 active site 1235461019461 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1235461019462 Ion channel; Region: Ion_trans_2; pfam07885 1235461019463 Predicted periplasmic protein [Function unknown]; Region: COG3904 1235461019464 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1235461019465 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461019466 phosphorylation site [posttranslational modification] 1235461019467 dimer interface [polypeptide binding]; other site 1235461019468 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461019469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461019470 active site 1235461019471 phosphorylation site [posttranslational modification] 1235461019472 intermolecular recognition site; other site 1235461019473 dimerization interface [polypeptide binding]; other site 1235461019474 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1235461019475 cyclase homology domain; Region: CHD; cd07302 1235461019476 nucleotidyl binding site; other site 1235461019477 metal binding site [ion binding]; metal-binding site 1235461019478 dimer interface [polypeptide binding]; other site 1235461019479 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461019480 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461019481 active site 1235461019482 phosphorylation site [posttranslational modification] 1235461019483 intermolecular recognition site; other site 1235461019484 dimerization interface [polypeptide binding]; other site 1235461019485 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1235461019486 dimerization interface [polypeptide binding]; other site 1235461019487 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1235461019488 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461019489 dimer interface [polypeptide binding]; other site 1235461019490 phosphorylation site [posttranslational modification] 1235461019491 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461019492 ATP binding site [chemical binding]; other site 1235461019493 Mg2+ binding site [ion binding]; other site 1235461019494 G-X-G motif; other site 1235461019495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461019496 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461019497 active site 1235461019498 phosphorylation site [posttranslational modification] 1235461019499 intermolecular recognition site; other site 1235461019500 dimerization interface [polypeptide binding]; other site 1235461019501 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1235461019502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461019503 active site 1235461019504 phosphorylation site [posttranslational modification] 1235461019505 intermolecular recognition site; other site 1235461019506 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1235461019507 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461019508 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461019509 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461019510 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461019511 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461019512 TM-ABC transporter signature motif; other site 1235461019513 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461019514 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461019515 Walker A/P-loop; other site 1235461019516 ATP binding site [chemical binding]; other site 1235461019517 Q-loop/lid; other site 1235461019518 ABC transporter signature motif; other site 1235461019519 Walker B; other site 1235461019520 D-loop; other site 1235461019521 H-loop/switch region; other site 1235461019522 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461019523 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5618 1235461019524 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1235461019525 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461019526 ligand binding site [chemical binding]; other site 1235461019527 dimerization interface [polypeptide binding]; other site 1235461019528 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1235461019529 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461019530 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461019531 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1235461019532 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1235461019533 HlyD family secretion protein; Region: HlyD_3; pfam13437 1235461019534 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1235461019535 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1235461019536 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1235461019537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461019538 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461019539 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461019540 catalytic loop [active] 1235461019541 iron binding site [ion binding]; other site 1235461019542 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461019543 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461019544 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461019545 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461019546 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461019547 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461019548 putative substrate translocation pore; other site 1235461019549 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1235461019550 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1235461019551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1235461019552 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1235461019553 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1235461019554 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 1235461019555 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1235461019556 SPW repeat; Region: SPW; pfam03779 1235461019557 SPW repeat; Region: SPW; pfam03779 1235461019558 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461019559 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461019560 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461019561 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 1235461019562 conserved cys residue [active] 1235461019563 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461019564 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461019565 Walker A/P-loop; other site 1235461019566 ATP binding site [chemical binding]; other site 1235461019567 Q-loop/lid; other site 1235461019568 ABC transporter signature motif; other site 1235461019569 Walker B; other site 1235461019570 D-loop; other site 1235461019571 H-loop/switch region; other site 1235461019572 TOBE domain; Region: TOBE_2; pfam08402 1235461019573 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461019574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019575 dimer interface [polypeptide binding]; other site 1235461019576 conserved gate region; other site 1235461019577 putative PBP binding loops; other site 1235461019578 ABC-ATPase subunit interface; other site 1235461019579 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461019580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019581 dimer interface [polypeptide binding]; other site 1235461019582 conserved gate region; other site 1235461019583 putative PBP binding loops; other site 1235461019584 ABC-ATPase subunit interface; other site 1235461019585 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461019586 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461019587 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461019588 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461019589 DNA binding site [nucleotide binding] 1235461019590 domain linker motif; other site 1235461019591 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1235461019592 ligand binding site [chemical binding]; other site 1235461019593 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461019594 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461019595 DNA-binding site [nucleotide binding]; DNA binding site 1235461019596 FCD domain; Region: FCD; pfam07729 1235461019597 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461019598 DctM-like transporters; Region: DctM; pfam06808 1235461019599 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461019600 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461019601 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1235461019602 Predicted flavoproteins [General function prediction only]; Region: COG2081 1235461019603 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1235461019604 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461019605 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461019606 TM-ABC transporter signature motif; other site 1235461019607 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1235461019608 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461019609 Walker A/P-loop; other site 1235461019610 ATP binding site [chemical binding]; other site 1235461019611 Q-loop/lid; other site 1235461019612 ABC transporter signature motif; other site 1235461019613 Walker B; other site 1235461019614 D-loop; other site 1235461019615 H-loop/switch region; other site 1235461019616 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461019617 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1235461019618 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461019619 ligand binding site [chemical binding]; other site 1235461019620 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1235461019621 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461019622 TM-ABC transporter signature motif; other site 1235461019623 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1235461019624 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1235461019625 DAK2 domain; Region: Dak2; pfam02734 1235461019626 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1235461019627 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1235461019628 DNA binding residues [nucleotide binding] 1235461019629 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1235461019630 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1235461019631 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1235461019632 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1235461019633 DAK2 domain; Region: Dak2; cl03685 1235461019634 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1235461019635 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1235461019636 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461019637 cyclase homology domain; Region: CHD; cd07302 1235461019638 nucleotidyl binding site; other site 1235461019639 metal binding site [ion binding]; metal-binding site 1235461019640 dimer interface [polypeptide binding]; other site 1235461019641 Predicted integral membrane protein [Function unknown]; Region: COG5616 1235461019642 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1235461019643 binding surface 1235461019644 TPR motif; other site 1235461019645 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1235461019646 TPR motif; other site 1235461019647 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1235461019648 binding surface 1235461019649 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1235461019650 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1235461019651 inhibitor site; inhibition site 1235461019652 active site 1235461019653 dimer interface [polypeptide binding]; other site 1235461019654 catalytic residue [active] 1235461019655 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461019656 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1235461019657 inhibitor site; inhibition site 1235461019658 active site 1235461019659 dimer interface [polypeptide binding]; other site 1235461019660 catalytic residue [active] 1235461019661 DctM-like transporters; Region: DctM; pfam06808 1235461019662 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1235461019663 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1235461019664 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1235461019665 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1235461019666 transcriptional regulator NanR; Provisional; Region: PRK03837 1235461019667 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461019668 DNA-binding site [nucleotide binding]; DNA binding site 1235461019669 FCD domain; Region: FCD; pfam07729 1235461019670 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1235461019671 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1235461019672 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1235461019673 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1235461019674 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1235461019675 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461019676 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461019677 DNA binding site [nucleotide binding] 1235461019678 domain linker motif; other site 1235461019679 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_8; cd06287 1235461019680 putative dimerization interface [polypeptide binding]; other site 1235461019681 putative ligand binding site [chemical binding]; other site 1235461019682 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1235461019683 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1235461019684 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1235461019685 active site 1235461019686 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1235461019687 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 1235461019688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461019689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461019690 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1235461019691 dimerization interface [polypeptide binding]; other site 1235461019692 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1235461019693 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461019694 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461019695 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019696 ABC-ATPase subunit interface; other site 1235461019697 putative PBP binding loops; other site 1235461019698 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1235461019699 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019700 dimer interface [polypeptide binding]; other site 1235461019701 conserved gate region; other site 1235461019702 putative PBP binding loops; other site 1235461019703 ABC-ATPase subunit interface; other site 1235461019704 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1235461019705 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1235461019706 Walker A/P-loop; other site 1235461019707 ATP binding site [chemical binding]; other site 1235461019708 Q-loop/lid; other site 1235461019709 ABC transporter signature motif; other site 1235461019710 Walker B; other site 1235461019711 D-loop; other site 1235461019712 H-loop/switch region; other site 1235461019713 TOBE domain; Region: TOBE_2; pfam08402 1235461019714 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1235461019715 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1235461019716 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1235461019717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 1235461019718 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1235461019719 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1235461019720 hypothetical protein; Provisional; Region: PRK07483 1235461019721 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1235461019722 inhibitor-cofactor binding pocket; inhibition site 1235461019723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1235461019724 catalytic residue [active] 1235461019725 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1235461019726 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461019727 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1235461019728 putative active site [active] 1235461019729 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1235461019730 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461019731 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1235461019732 putative substrate translocation pore; other site 1235461019733 OsmC-like protein; Region: OsmC; cl00767 1235461019734 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1235461019735 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1235461019736 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 1235461019737 substrate binding site [chemical binding]; other site 1235461019738 Protein of unknown function (DUF521); Region: DUF521; pfam04412 1235461019739 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 1235461019740 substrate binding site [chemical binding]; other site 1235461019741 ligand binding site [chemical binding]; other site 1235461019742 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1235461019743 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1235461019744 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1235461019745 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1235461019746 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461019747 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1235461019748 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1235461019749 Walker A/P-loop; other site 1235461019750 ATP binding site [chemical binding]; other site 1235461019751 Q-loop/lid; other site 1235461019752 ABC transporter signature motif; other site 1235461019753 Walker B; other site 1235461019754 D-loop; other site 1235461019755 H-loop/switch region; other site 1235461019756 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019757 dimer interface [polypeptide binding]; other site 1235461019758 conserved gate region; other site 1235461019759 putative PBP binding loops; other site 1235461019760 ABC-ATPase subunit interface; other site 1235461019761 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1235461019762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019763 dimer interface [polypeptide binding]; other site 1235461019764 conserved gate region; other site 1235461019765 putative PBP binding loops; other site 1235461019766 ABC-ATPase subunit interface; other site 1235461019767 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1235461019768 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461019769 substrate binding pocket [chemical binding]; other site 1235461019770 membrane-bound complex binding site; other site 1235461019771 hinge residues; other site 1235461019772 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1235461019773 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1235461019774 dimer interface [polypeptide binding]; other site 1235461019775 NADP binding site [chemical binding]; other site 1235461019776 catalytic residues [active] 1235461019777 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1235461019778 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1235461019779 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461019780 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1235461019781 inhibitor site; inhibition site 1235461019782 active site 1235461019783 dimer interface [polypeptide binding]; other site 1235461019784 catalytic residue [active] 1235461019785 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461019786 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461019787 DNA-binding site [nucleotide binding]; DNA binding site 1235461019788 FCD domain; Region: FCD; pfam07729 1235461019789 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1235461019790 cyclase homology domain; Region: CHD; cd07302 1235461019791 nucleotidyl binding site; other site 1235461019792 metal binding site [ion binding]; metal-binding site 1235461019793 dimer interface [polypeptide binding]; other site 1235461019794 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1235461019795 putative hydrophobic ligand binding site [chemical binding]; other site 1235461019796 Predicted membrane protein [Function unknown]; Region: COG4420 1235461019797 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1235461019798 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 1235461019799 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 1235461019800 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 1235461019801 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 1235461019802 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1235461019803 catalytic core [active] 1235461019804 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 1235461019805 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 1235461019806 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1235461019807 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1235461019808 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1235461019809 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461019810 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 1235461019811 putative NAD(P) binding site [chemical binding]; other site 1235461019812 catalytic Zn binding site [ion binding]; other site 1235461019813 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461019814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1235461019815 NAD(P) binding site [chemical binding]; other site 1235461019816 active site 1235461019817 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 1235461019818 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461019819 NAD binding site [chemical binding]; other site 1235461019820 homotetramer interface [polypeptide binding]; other site 1235461019821 homodimer interface [polypeptide binding]; other site 1235461019822 active site 1235461019823 substrate binding site [chemical binding]; other site 1235461019824 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1235461019825 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461019826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1235461019827 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1235461019828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1235461019829 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1235461019830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1235461019831 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1235461019832 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1235461019833 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1235461019834 NAD binding site [chemical binding]; other site 1235461019835 putative substrate binding site 2 [chemical binding]; other site 1235461019836 putative substrate binding site 1 [chemical binding]; other site 1235461019837 active site 1235461019838 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1235461019839 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461019840 S-adenosylmethionine binding site [chemical binding]; other site 1235461019841 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1235461019842 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1235461019843 Walker A/P-loop; other site 1235461019844 ATP binding site [chemical binding]; other site 1235461019845 Q-loop/lid; other site 1235461019846 ABC transporter signature motif; other site 1235461019847 Walker B; other site 1235461019848 D-loop; other site 1235461019849 H-loop/switch region; other site 1235461019850 TOBE domain; Region: TOBE_2; pfam08402 1235461019851 Protein of unknown function (DUF2961); Region: DUF2961; pfam11175 1235461019852 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1235461019853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019854 dimer interface [polypeptide binding]; other site 1235461019855 conserved gate region; other site 1235461019856 putative PBP binding loops; other site 1235461019857 ABC-ATPase subunit interface; other site 1235461019858 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1235461019859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461019860 ABC-ATPase subunit interface; other site 1235461019861 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1235461019862 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1235461019863 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461019864 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461019865 DNA binding site [nucleotide binding] 1235461019866 domain linker motif; other site 1235461019867 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1235461019868 dimerization interface [polypeptide binding]; other site 1235461019869 ligand binding site [chemical binding]; other site 1235461019870 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1235461019871 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1235461019872 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1235461019873 BON domain; Region: BON; pfam04972 1235461019874 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1235461019875 Cupin domain; Region: Cupin_2; pfam07883 1235461019876 Epoxide hydrolase N terminus; Region: EHN; pfam06441 1235461019877 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461019878 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1235461019879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461019880 active site 1235461019881 phosphorylation site [posttranslational modification] 1235461019882 intermolecular recognition site; other site 1235461019883 dimerization interface [polypeptide binding]; other site 1235461019884 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1235461019885 DNA binding site [nucleotide binding] 1235461019886 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1235461019887 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1235461019888 dimer interface [polypeptide binding]; other site 1235461019889 phosphorylation site [posttranslational modification] 1235461019890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461019891 ATP binding site [chemical binding]; other site 1235461019892 Mg2+ binding site [ion binding]; other site 1235461019893 G-X-G motif; other site 1235461019894 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1235461019895 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1235461019896 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461019897 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461019898 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1235461019899 conserved cys residue [active] 1235461019900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461019901 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1235461019902 classical (c) SDRs; Region: SDR_c; cd05233 1235461019903 NAD(P) binding site [chemical binding]; other site 1235461019904 active site 1235461019905 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1235461019906 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1235461019907 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1235461019908 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1235461019909 catalytic residues [active] 1235461019910 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1235461019911 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1235461019912 potential catalytic triad [active] 1235461019913 conserved cys residue [active] 1235461019914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461019915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461019916 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1235461019917 putative effector binding pocket; other site 1235461019918 putative dimerization interface [polypeptide binding]; other site 1235461019919 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1235461019920 classical (c) SDRs; Region: SDR_c; cd05233 1235461019921 NAD(P) binding site [chemical binding]; other site 1235461019922 active site 1235461019923 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1235461019924 active site 1 [active] 1235461019925 dimer interface [polypeptide binding]; other site 1235461019926 hexamer interface [polypeptide binding]; other site 1235461019927 active site 2 [active] 1235461019928 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1235461019929 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1235461019930 FeS/SAM binding site; other site 1235461019931 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1235461019932 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 1235461019933 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1235461019934 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1235461019935 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1235461019936 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461019937 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461019938 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 1235461019939 putative dimerization interface [polypeptide binding]; other site 1235461019940 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1235461019941 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1235461019942 AMP binding site [chemical binding]; other site 1235461019943 metal binding site [ion binding]; metal-binding site 1235461019944 active site 1235461019945 phosphoribulokinase; Provisional; Region: PRK15453 1235461019946 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1235461019947 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1235461019948 TPP-binding site [chemical binding]; other site 1235461019949 dimer interface [polypeptide binding]; other site 1235461019950 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1235461019951 PYR/PP interface [polypeptide binding]; other site 1235461019952 dimer interface [polypeptide binding]; other site 1235461019953 TPP binding site [chemical binding]; other site 1235461019954 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1235461019955 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1235461019956 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1235461019957 intersubunit interface [polypeptide binding]; other site 1235461019958 active site 1235461019959 zinc binding site [ion binding]; other site 1235461019960 Na+ binding site [ion binding]; other site 1235461019961 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 1235461019962 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 1235461019963 homodimer interface [polypeptide binding]; other site 1235461019964 active site 1235461019965 heterodimer interface [polypeptide binding]; other site 1235461019966 catalytic residue [active] 1235461019967 metal binding site [ion binding]; metal-binding site 1235461019968 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 1235461019969 multimerization interface [polypeptide binding]; other site 1235461019970 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 1235461019971 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461019972 Walker A motif; other site 1235461019973 ATP binding site [chemical binding]; other site 1235461019974 Walker B motif; other site 1235461019975 arginine finger; other site 1235461019976 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1235461019977 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1235461019978 substrate binding site [chemical binding]; other site 1235461019979 hexamer interface [polypeptide binding]; other site 1235461019980 metal binding site [ion binding]; metal-binding site 1235461019981 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1235461019982 putative catalytic residue [active] 1235461019983 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 1235461019984 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1235461019985 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 1235461019986 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1235461019987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461019988 Walker A/P-loop; other site 1235461019989 ATP binding site [chemical binding]; other site 1235461019990 Q-loop/lid; other site 1235461019991 ABC transporter signature motif; other site 1235461019992 Walker B; other site 1235461019993 D-loop; other site 1235461019994 H-loop/switch region; other site 1235461019995 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1235461019996 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461019997 Walker A/P-loop; other site 1235461019998 ATP binding site [chemical binding]; other site 1235461019999 Q-loop/lid; other site 1235461020000 ABC transporter signature motif; other site 1235461020001 Walker B; other site 1235461020002 D-loop; other site 1235461020003 H-loop/switch region; other site 1235461020004 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1235461020005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461020006 dimer interface [polypeptide binding]; other site 1235461020007 conserved gate region; other site 1235461020008 putative PBP binding loops; other site 1235461020009 ABC-ATPase subunit interface; other site 1235461020010 NMT1/THI5 like; Region: NMT1; pfam09084 1235461020011 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1235461020012 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1235461020013 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1235461020014 structural tetrad; other site 1235461020015 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1235461020016 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1235461020017 ligand binding site [chemical binding]; other site 1235461020018 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 1235461020019 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1235461020020 active site residue [active] 1235461020021 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 1235461020022 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1235461020023 substrate binding pocket [chemical binding]; other site 1235461020024 membrane-bound complex binding site; other site 1235461020025 hinge residues; other site 1235461020026 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1235461020027 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 1235461020028 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1235461020029 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 1235461020030 Trp docking motif [polypeptide binding]; other site 1235461020031 dimer interface [polypeptide binding]; other site 1235461020032 active site 1235461020033 small subunit binding site [polypeptide binding]; other site 1235461020034 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1235461020035 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1235461020036 S-formylglutathione hydrolase; Region: PLN02442 1235461020037 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1235461020038 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1235461020039 substrate binding site [chemical binding]; other site 1235461020040 catalytic Zn binding site [ion binding]; other site 1235461020041 NAD binding site [chemical binding]; other site 1235461020042 structural Zn binding site [ion binding]; other site 1235461020043 dimer interface [polypeptide binding]; other site 1235461020044 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1235461020045 Predicted secreted protein [Function unknown]; Region: COG5501 1235461020046 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1235461020047 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1235461020048 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1235461020049 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1235461020050 dimer interface [polypeptide binding]; other site 1235461020051 phosphorylation site [posttranslational modification] 1235461020052 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461020053 ATP binding site [chemical binding]; other site 1235461020054 Mg2+ binding site [ion binding]; other site 1235461020055 G-X-G motif; other site 1235461020056 Response regulator receiver domain; Region: Response_reg; pfam00072 1235461020057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461020058 active site 1235461020059 phosphorylation site [posttranslational modification] 1235461020060 intermolecular recognition site; other site 1235461020061 dimerization interface [polypeptide binding]; other site 1235461020062 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1235461020063 FIST N domain; Region: FIST; pfam08495 1235461020064 FIST C domain; Region: FIST_C; pfam10442 1235461020065 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461020066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461020067 active site 1235461020068 phosphorylation site [posttranslational modification] 1235461020069 intermolecular recognition site; other site 1235461020070 dimerization interface [polypeptide binding]; other site 1235461020071 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461020072 DNA binding residues [nucleotide binding] 1235461020073 dimerization interface [polypeptide binding]; other site 1235461020074 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1235461020075 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1235461020076 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1235461020077 active site 1235461020078 catalytic residues [active] 1235461020079 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461020080 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1235461020081 active site 1235461020082 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1235461020083 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461020084 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1235461020085 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1235461020086 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1235461020087 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1235461020088 Walker A/P-loop; other site 1235461020089 ATP binding site [chemical binding]; other site 1235461020090 Q-loop/lid; other site 1235461020091 ABC transporter signature motif; other site 1235461020092 Walker B; other site 1235461020093 D-loop; other site 1235461020094 H-loop/switch region; other site 1235461020095 TOBE domain; Region: TOBE_2; pfam08402 1235461020096 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1235461020097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461020098 dimer interface [polypeptide binding]; other site 1235461020099 conserved gate region; other site 1235461020100 putative PBP binding loops; other site 1235461020101 ABC-ATPase subunit interface; other site 1235461020102 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461020103 dimer interface [polypeptide binding]; other site 1235461020104 conserved gate region; other site 1235461020105 putative PBP binding loops; other site 1235461020106 ABC-ATPase subunit interface; other site 1235461020107 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1235461020108 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1235461020109 DNA binding site [nucleotide binding] 1235461020110 domain linker motif; other site 1235461020111 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 1235461020112 putative dimerization interface [polypeptide binding]; other site 1235461020113 putative ligand binding site [chemical binding]; other site 1235461020114 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461020115 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461020116 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1235461020117 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1235461020118 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1235461020119 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1235461020120 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1235461020121 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1235461020122 catalytic residues [active] 1235461020123 catalytic nucleophile [active] 1235461020124 Presynaptic Site I dimer interface [polypeptide binding]; other site 1235461020125 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1235461020126 Synaptic Flat tetramer interface [polypeptide binding]; other site 1235461020127 Synaptic Site I dimer interface [polypeptide binding]; other site 1235461020128 DNA binding site [nucleotide binding] 1235461020129 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1235461020130 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1235461020131 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1235461020132 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1235461020133 PhoU domain; Region: PhoU; pfam01895 1235461020134 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1235461020135 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1235461020136 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1235461020137 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1235461020138 active site 1235461020139 catalytic residues [active] 1235461020140 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1235461020141 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1235461020142 dimerization interface [polypeptide binding]; other site 1235461020143 active site 1235461020144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1235461020145 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461020146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461020147 DNA-binding site [nucleotide binding]; DNA binding site 1235461020148 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461020149 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1235461020150 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1235461020151 active site 1235461020152 NAD binding site [chemical binding]; other site 1235461020153 metal binding site [ion binding]; metal-binding site 1235461020154 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 1235461020155 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1235461020156 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1235461020157 BNR repeat-like domain; Region: BNR_2; pfam13088 1235461020158 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461020159 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 1235461020160 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461020161 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461020162 dimer interface [polypeptide binding]; other site 1235461020163 conserved gate region; other site 1235461020164 putative PBP binding loops; other site 1235461020165 ABC-ATPase subunit interface; other site 1235461020166 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461020167 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1235461020168 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461020169 dimer interface [polypeptide binding]; other site 1235461020170 conserved gate region; other site 1235461020171 putative PBP binding loops; other site 1235461020172 ABC-ATPase subunit interface; other site 1235461020173 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461020174 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461020175 Walker A/P-loop; other site 1235461020176 ATP binding site [chemical binding]; other site 1235461020177 Q-loop/lid; other site 1235461020178 ABC transporter signature motif; other site 1235461020179 Walker B; other site 1235461020180 D-loop; other site 1235461020181 H-loop/switch region; other site 1235461020182 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461020183 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461020184 Walker A/P-loop; other site 1235461020185 ATP binding site [chemical binding]; other site 1235461020186 Q-loop/lid; other site 1235461020187 ABC transporter signature motif; other site 1235461020188 Walker B; other site 1235461020189 D-loop; other site 1235461020190 H-loop/switch region; other site 1235461020191 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461020192 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461020193 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1235461020194 inhibitor site; inhibition site 1235461020195 active site 1235461020196 dimer interface [polypeptide binding]; other site 1235461020197 catalytic residue [active] 1235461020198 Predicted membrane protein [Function unknown]; Region: COG4329 1235461020199 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1235461020200 active site 1235461020201 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 1235461020202 active site 1235461020203 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1235461020204 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1235461020205 Flavoprotein; Region: Flavoprotein; pfam02441 1235461020206 xanthine permease; Region: pbuX; TIGR03173 1235461020207 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1235461020208 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1235461020209 P-loop, Walker A motif; other site 1235461020210 Base recognition motif; other site 1235461020211 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1235461020212 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1235461020213 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1235461020214 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1235461020215 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1235461020216 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1235461020217 catalytic loop [active] 1235461020218 iron binding site [ion binding]; other site 1235461020219 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1235461020220 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1235461020221 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1235461020222 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461020223 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1235461020224 DNA-binding site [nucleotide binding]; DNA binding site 1235461020225 FCD domain; Region: FCD; pfam07729 1235461020226 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1235461020227 cytosine deaminase; Provisional; Region: PRK05985 1235461020228 active site 1235461020229 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1235461020230 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1235461020231 putative ligand binding site [chemical binding]; other site 1235461020232 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461020233 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461020234 TM-ABC transporter signature motif; other site 1235461020235 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1235461020236 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1235461020237 TM-ABC transporter signature motif; other site 1235461020238 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1235461020239 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1235461020240 Walker A/P-loop; other site 1235461020241 ATP binding site [chemical binding]; other site 1235461020242 Q-loop/lid; other site 1235461020243 ABC transporter signature motif; other site 1235461020244 Walker B; other site 1235461020245 D-loop; other site 1235461020246 H-loop/switch region; other site 1235461020247 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1235461020248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1235461020249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1235461020250 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1235461020251 putative dimerization interface [polypeptide binding]; other site 1235461020252 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1235461020253 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1235461020254 homotrimer interaction site [polypeptide binding]; other site 1235461020255 putative active site [active] 1235461020256 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1235461020257 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1235461020258 putative ADP-binding pocket [chemical binding]; other site 1235461020259 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1235461020260 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1235461020261 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 1235461020262 hypothetical protein; Validated; Region: PRK08245 1235461020263 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1235461020264 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1235461020265 putative ligand binding site [chemical binding]; other site 1235461020266 NAD binding site [chemical binding]; other site 1235461020267 catalytic site [active] 1235461020268 EamA-like transporter family; Region: EamA; pfam00892 1235461020269 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1235461020270 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461020271 Walker A/P-loop; other site 1235461020272 ATP binding site [chemical binding]; other site 1235461020273 Q-loop/lid; other site 1235461020274 ABC transporter signature motif; other site 1235461020275 Walker B; other site 1235461020276 D-loop; other site 1235461020277 H-loop/switch region; other site 1235461020278 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461020279 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1235461020280 Walker A/P-loop; other site 1235461020281 ATP binding site [chemical binding]; other site 1235461020282 Q-loop/lid; other site 1235461020283 ABC transporter signature motif; other site 1235461020284 Walker B; other site 1235461020285 D-loop; other site 1235461020286 H-loop/switch region; other site 1235461020287 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1235461020288 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1235461020289 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461020290 dimer interface [polypeptide binding]; other site 1235461020291 conserved gate region; other site 1235461020292 putative PBP binding loops; other site 1235461020293 ABC-ATPase subunit interface; other site 1235461020294 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1235461020295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1235461020296 dimer interface [polypeptide binding]; other site 1235461020297 conserved gate region; other site 1235461020298 putative PBP binding loops; other site 1235461020299 ABC-ATPase subunit interface; other site 1235461020300 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1235461020301 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 1235461020302 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1235461020303 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1235461020304 inhibitor site; inhibition site 1235461020305 active site 1235461020306 dimer interface [polypeptide binding]; other site 1235461020307 catalytic residue [active] 1235461020308 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1235461020309 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461020310 DNA-binding site [nucleotide binding]; DNA binding site 1235461020311 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1235461020312 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1235461020313 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461020314 DNA-binding site [nucleotide binding]; DNA binding site 1235461020315 FCD domain; Region: FCD; pfam07729 1235461020316 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1235461020317 SnoaL-like domain; Region: SnoaL_2; pfam12680 1235461020318 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1235461020319 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1235461020320 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1235461020321 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1235461020322 Walker A motif; other site 1235461020323 ATP binding site [chemical binding]; other site 1235461020324 Walker B motif; other site 1235461020325 arginine finger; other site 1235461020326 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1235461020327 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1235461020328 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1235461020329 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1235461020330 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 1235461020331 trehalose synthase; Region: treS_nterm; TIGR02456 1235461020332 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1235461020333 active site 1235461020334 catalytic site [active] 1235461020335 Anabaena sensory rhodopsin transducer; Region: ASRT; cl01751 1235461020336 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1235461020337 FAD binding domain; Region: FAD_binding_4; pfam01565 1235461020338 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1235461020339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4288 1235461020340 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1235461020341 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1235461020342 PYR/PP interface [polypeptide binding]; other site 1235461020343 dimer interface [polypeptide binding]; other site 1235461020344 tetramer interface [polypeptide binding]; other site 1235461020345 TPP binding site [chemical binding]; other site 1235461020346 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1235461020347 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1235461020348 TPP-binding site [chemical binding]; other site 1235461020349 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1235461020350 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 1235461020351 putative active site [active] 1235461020352 catalytic site [active] 1235461020353 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 1235461020354 putative active site [active] 1235461020355 catalytic site [active] 1235461020356 Predicted integral membrane protein [Function unknown]; Region: COG0392 1235461020357 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1235461020358 putative catalytic site [active] 1235461020359 putative metal binding site [ion binding]; other site 1235461020360 putative phosphate binding site [ion binding]; other site 1235461020361 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1235461020362 dinuclear metal binding motif [ion binding]; other site 1235461020363 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1235461020364 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461020365 S-adenosylmethionine binding site [chemical binding]; other site 1235461020366 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1235461020367 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 1235461020368 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 1235461020369 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1235461020370 active site 1235461020371 metal binding site [ion binding]; metal-binding site 1235461020372 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1235461020373 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1235461020374 NAD binding site [chemical binding]; other site 1235461020375 catalytic Zn binding site [ion binding]; other site 1235461020376 structural Zn binding site [ion binding]; other site 1235461020377 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461020378 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461020379 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461020380 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461020381 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1235461020382 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1235461020383 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1235461020384 active site 1235461020385 phosphorylation site [posttranslational modification] 1235461020386 intermolecular recognition site; other site 1235461020387 dimerization interface [polypeptide binding]; other site 1235461020388 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1235461020389 DNA binding residues [nucleotide binding] 1235461020390 dimerization interface [polypeptide binding]; other site 1235461020391 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1235461020392 Histidine kinase; Region: HisKA_3; pfam07730 1235461020393 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1235461020394 ATP binding site [chemical binding]; other site 1235461020395 Mg2+ binding site [ion binding]; other site 1235461020396 G-X-G motif; other site 1235461020397 short chain dehydrogenase; Provisional; Region: PRK06139 1235461020398 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1235461020399 putative NAD(P) binding site [chemical binding]; other site 1235461020400 active site 1235461020401 short chain dehydrogenase; Provisional; Region: PRK06701 1235461020402 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1235461020403 NAD binding site [chemical binding]; other site 1235461020404 metal binding site [ion binding]; metal-binding site 1235461020405 active site 1235461020406 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1235461020407 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1235461020408 putative ligand binding site [chemical binding]; other site 1235461020409 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1235461020410 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1235461020411 putative substrate translocation pore; other site 1235461020412 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1235461020413 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1235461020414 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1235461020415 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1235461020416 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1235461020417 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1235461020418 Uncharacterized conserved protein [Function unknown]; Region: COG3360 1235461020419 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1235461020420 trimer interface [polypeptide binding]; other site 1235461020421 putative Zn binding site [ion binding]; other site 1235461020422 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461020423 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461020424 putative active site [active] 1235461020425 putative NTP binding site [chemical binding]; other site 1235461020426 putative nucleic acid binding site [nucleotide binding]; other site 1235461020427 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461020428 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461020429 Transposase domain (DUF772); Region: DUF772; pfam05598 1235461020430 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1235461020431 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1235461020432 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1235461020433 putative active site [active] 1235461020434 putative NTP binding site [chemical binding]; other site 1235461020435 putative nucleic acid binding site [nucleotide binding]; other site 1235461020436 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1235461020437 Transposase; Region: HTH_Tnp_1; cl17663 1235461020438 Winged helix-turn helix; Region: HTH_29; pfam13551 1235461020439 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1235461020440 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 1235461020441 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1235461020442 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1235461020443 S-adenosylmethionine binding site [chemical binding]; other site 1235461020444 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1235461020445 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1235461020446 Walker A/P-loop; other site 1235461020447 ATP binding site [chemical binding]; other site 1235461020448 Q-loop/lid; other site 1235461020449 ABC transporter signature motif; other site 1235461020450 Walker B; other site 1235461020451 D-loop; other site 1235461020452 H-loop/switch region; other site 1235461020453 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1235461020454 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1235461020455 ABC-ATPase subunit interface; other site 1235461020456 dimer interface [polypeptide binding]; other site 1235461020457 putative PBP binding regions; other site 1235461020458 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1235461020459 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1235461020460 putative ligand binding residues [chemical binding]; other site 1235461020461 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 1235461020462 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1235461020463 DctM-like transporters; Region: DctM; pfam06808 1235461020464 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1235461020465 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1235461020466 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1235461020467 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1235461020468 conserved cys residue [active] 1235461020469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461020470 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1235461020471 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1235461020472 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1235461020473 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1235461020474 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1235461020475 elongation factor G; Reviewed; Region: PRK12740 1235461020476 G1 box; other site 1235461020477 GTP/Mg2+ binding site [chemical binding]; other site 1235461020478 G2 box; other site 1235461020479 G3 box; other site 1235461020480 Switch II region; other site 1235461020481 G4 box; other site 1235461020482 G5 box; other site 1235461020483 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1235461020484 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1235461020485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1235461020486 DNA-binding site [nucleotide binding]; DNA binding site 1235461020487 UTRA domain; Region: UTRA; pfam07702