-- dump date 20140620_024308 -- class Genbank::misc_feature -- table misc_feature_note -- id note 491916000001 PEP synthetase regulatory protein; Provisional; Region: PRK05339 491916000002 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 491916000003 active site 491916000004 dimer interface [polypeptide binding]; other site 491916000005 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 491916000006 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 491916000007 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 491916000008 shikimate binding site; other site 491916000009 NAD(P) binding site [chemical binding]; other site 491916000010 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 491916000011 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 491916000012 CoA-binding site [chemical binding]; other site 491916000013 ATP-binding [chemical binding]; other site 491916000014 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 491916000015 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 491916000016 active site 491916000017 catalytic site [active] 491916000018 substrate binding site [chemical binding]; other site 491916000019 preprotein translocase subunit SecB; Validated; Region: PRK05751 491916000020 SecA binding site; other site 491916000021 Preprotein binding site; other site 491916000022 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 491916000023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 491916000024 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 491916000025 MltA specific insert domain; Region: MltA; smart00925 491916000026 3D domain; Region: 3D; pfam06725 491916000027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 491916000028 Smr domain; Region: Smr; pfam01713 491916000029 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916000030 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 491916000031 non-specific DNA binding site [nucleotide binding]; other site 491916000032 salt bridge; other site 491916000033 sequence-specific DNA binding site [nucleotide binding]; other site 491916000034 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 491916000035 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 491916000036 Mg2+ binding site [ion binding]; other site 491916000037 G-X-G motif; other site 491916000038 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 491916000039 anchoring element; other site 491916000040 dimer interface [polypeptide binding]; other site 491916000041 ATP binding site [chemical binding]; other site 491916000042 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 491916000043 active site 491916000044 putative metal-binding site [ion binding]; other site 491916000045 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 491916000046 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 491916000047 putative FMN binding site [chemical binding]; other site 491916000048 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 491916000049 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 491916000050 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 491916000051 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 491916000052 putative dimer interface [polypeptide binding]; other site 491916000053 N-terminal domain interface [polypeptide binding]; other site 491916000054 putative substrate binding pocket (H-site) [chemical binding]; other site 491916000055 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 491916000056 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491916000057 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 491916000058 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 491916000059 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 491916000060 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 491916000061 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 491916000062 active site 491916000063 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 491916000064 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 491916000065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916000066 catalytic residue [active] 491916000067 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 491916000068 substrate binding site [chemical binding]; other site 491916000069 active site 491916000070 catalytic residues [active] 491916000071 heterodimer interface [polypeptide binding]; other site 491916000072 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 491916000073 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 491916000074 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 491916000075 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 491916000076 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491916000077 catalytic residues [active] 491916000078 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 491916000079 Part of AAA domain; Region: AAA_19; pfam13245 491916000080 Family description; Region: UvrD_C_2; pfam13538 491916000081 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 491916000082 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 491916000083 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 491916000084 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 491916000085 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 491916000086 Substrate binding site; other site 491916000087 metal-binding site 491916000088 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 491916000089 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 491916000090 Phosphotransferase enzyme family; Region: APH; pfam01636 491916000091 PAS fold; Region: PAS_7; pfam12860 491916000092 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 491916000093 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 491916000094 dimer interface [polypeptide binding]; other site 491916000095 phosphorylation site [posttranslational modification] 491916000096 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 491916000097 ATP binding site [chemical binding]; other site 491916000098 Mg2+ binding site [ion binding]; other site 491916000099 G-X-G motif; other site 491916000100 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 491916000101 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 491916000102 homotetramer interface [polypeptide binding]; other site 491916000103 ligand binding site [chemical binding]; other site 491916000104 catalytic site [active] 491916000105 NAD binding site [chemical binding]; other site 491916000106 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 491916000107 dimerization domain swap beta strand [polypeptide binding]; other site 491916000108 regulatory protein interface [polypeptide binding]; other site 491916000109 active site 491916000110 regulatory phosphorylation site [posttranslational modification]; other site 491916000111 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 491916000112 active pocket/dimerization site; other site 491916000113 active site 491916000114 phosphorylation site [posttranslational modification] 491916000115 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 491916000116 Hpr binding site; other site 491916000117 active site 491916000118 homohexamer subunit interaction site [polypeptide binding]; other site 491916000119 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 491916000120 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 491916000121 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 491916000122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916000123 dimerization interface [polypeptide binding]; other site 491916000124 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 491916000125 dimer interface [polypeptide binding]; other site 491916000126 phosphorylation site [posttranslational modification] 491916000127 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 491916000128 ATP binding site [chemical binding]; other site 491916000129 Mg2+ binding site [ion binding]; other site 491916000130 G-X-G motif; other site 491916000131 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916000132 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 491916000133 active site 491916000134 phosphorylation site [posttranslational modification] 491916000135 intermolecular recognition site; other site 491916000136 dimerization interface [polypeptide binding]; other site 491916000137 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 491916000138 DNA binding site [nucleotide binding] 491916000139 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 491916000140 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 491916000141 active site 491916000142 substrate-binding site [chemical binding]; other site 491916000143 metal-binding site [ion binding] 491916000144 ATP binding site [chemical binding]; other site 491916000145 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 491916000146 hypothetical protein; Provisional; Region: PRK09256 491916000147 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 491916000148 pantothenate kinase; Provisional; Region: PRK05439 491916000149 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 491916000150 ATP-binding site [chemical binding]; other site 491916000151 CoA-binding site [chemical binding]; other site 491916000152 Mg2+-binding site [ion binding]; other site 491916000153 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 491916000154 metal binding site [ion binding]; metal-binding site 491916000155 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 491916000156 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 491916000157 substrate binding site [chemical binding]; other site 491916000158 glutamase interaction surface [polypeptide binding]; other site 491916000159 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 491916000160 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 491916000161 catalytic residues [active] 491916000162 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 491916000163 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 491916000164 putative active site [active] 491916000165 oxyanion strand; other site 491916000166 catalytic triad [active] 491916000167 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 491916000168 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 491916000169 putative active site pocket [active] 491916000170 4-fold oligomerization interface [polypeptide binding]; other site 491916000171 metal binding residues [ion binding]; metal-binding site 491916000172 3-fold/trimer interface [polypeptide binding]; other site 491916000173 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 491916000174 active site 491916000175 HslU subunit interaction site [polypeptide binding]; other site 491916000176 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 491916000177 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 491916000178 Walker A motif; other site 491916000179 ATP binding site [chemical binding]; other site 491916000180 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 491916000181 Walker B motif; other site 491916000182 arginine finger; other site 491916000183 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 491916000184 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 491916000185 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 491916000186 Cytochrome P450; Region: p450; cl12078 491916000187 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 491916000188 active site 491916000189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916000190 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916000191 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 491916000192 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 491916000193 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 491916000194 active site 491916000195 phosphorylation site [posttranslational modification] 491916000196 intermolecular recognition site; other site 491916000197 dimerization interface [polypeptide binding]; other site 491916000198 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 491916000199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916000200 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 491916000201 dimer interface [polypeptide binding]; other site 491916000202 phosphorylation site [posttranslational modification] 491916000203 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 491916000204 ATP binding site [chemical binding]; other site 491916000205 Mg2+ binding site [ion binding]; other site 491916000206 G-X-G motif; other site 491916000207 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 491916000208 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 491916000209 ATP binding site [chemical binding]; other site 491916000210 putative Mg++ binding site [ion binding]; other site 491916000211 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 491916000212 nucleotide binding region [chemical binding]; other site 491916000213 ATP-binding site [chemical binding]; other site 491916000214 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 491916000215 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 491916000216 ornithine cyclodeaminase; Validated; Region: PRK06141 491916000217 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 491916000218 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 491916000219 AAA domain; Region: AAA_12; pfam13087 491916000220 yich00001; insertion sequence:Transposase, IS66 491916000221 yich00002; insertion sequence:Transposase (), IS66 Orf2 like 491916000222 yich00003; insertion sequence:Transposase IS3/IS911 491916000223 Drosophila ACP53EA protein; Region: ACP53EA; pfam06313 491916000224 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916000225 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 491916000226 DNA binding residues [nucleotide binding] 491916000227 dimerization interface [polypeptide binding]; other site 491916000228 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916000229 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 491916000230 NAD binding site [chemical binding]; other site 491916000231 putative substrate binding site 2 [chemical binding]; other site 491916000232 putative substrate binding site 1 [chemical binding]; other site 491916000233 active site 491916000234 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 491916000235 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 491916000236 NAD binding site [chemical binding]; other site 491916000237 homodimer interface [polypeptide binding]; other site 491916000238 active site 491916000239 substrate binding site [chemical binding]; other site 491916000240 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 491916000241 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 491916000242 active site 491916000243 Protein of unknown function (DUF995); Region: DUF995; pfam06191 491916000244 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 491916000245 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916000246 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916000247 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916000248 DNA binding site [nucleotide binding] 491916000249 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916000250 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 491916000251 ligand binding site [chemical binding]; other site 491916000252 dimerization interface [polypeptide binding]; other site 491916000253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4289 491916000254 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 491916000255 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 491916000256 putative ligand binding site [chemical binding]; other site 491916000257 putative NAD binding site [chemical binding]; other site 491916000258 catalytic site [active] 491916000259 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916000260 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916000261 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916000262 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916000263 Protein of unknown function (DUF993); Region: DUF993; pfam06187 491916000264 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916000265 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916000266 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 491916000267 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916000268 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916000269 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916000270 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 491916000271 dimer interface [polypeptide binding]; other site 491916000272 conserved gate region; other site 491916000273 putative PBP binding loops; other site 491916000274 ABC-ATPase subunit interface; other site 491916000275 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916000276 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 491916000277 dimer interface [polypeptide binding]; other site 491916000278 conserved gate region; other site 491916000279 putative PBP binding loops; other site 491916000280 ABC-ATPase subunit interface; other site 491916000281 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916000282 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916000283 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916000284 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916000285 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916000286 Walker A/P-loop; other site 491916000287 ATP binding site [chemical binding]; other site 491916000288 Q-loop/lid; other site 491916000289 ABC transporter signature motif; other site 491916000290 Walker B; other site 491916000291 D-loop; other site 491916000292 H-loop/switch region; other site 491916000293 TOBE domain; Region: TOBE_2; pfam08402 491916000294 Choline Kinase (ChoK). The ChoK 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 kinase (AFK), and...; Region: ChoK; cd05151 491916000295 active site 491916000296 substrate binding site [chemical binding]; other site 491916000297 ATP binding site [chemical binding]; other site 491916000298 dimer interface [polypeptide binding]; other site 491916000299 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916000300 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491916000301 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 491916000302 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 491916000303 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491916000304 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 491916000305 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 491916000306 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 491916000307 glucuronate isomerase; Reviewed; Region: PRK02925 491916000308 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 491916000309 hypothetical protein; Provisional; Region: PRK00736 491916000310 succinic semialdehyde dehydrogenase; Region: PLN02278 491916000311 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 491916000312 tetramerization interface [polypeptide binding]; other site 491916000313 NAD(P) binding site [chemical binding]; other site 491916000314 catalytic residues [active] 491916000315 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 491916000316 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 491916000317 inhibitor-cofactor binding pocket; inhibition site 491916000318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916000319 catalytic residue [active] 491916000320 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 491916000321 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 491916000322 DNA binding residues [nucleotide binding] 491916000323 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 491916000324 sequence-specific DNA binding site [nucleotide binding]; other site 491916000325 salt bridge; other site 491916000326 Cupin domain; Region: Cupin_2; pfam07883 491916000327 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 491916000328 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 491916000329 catalytic site [active] 491916000330 putative active site [active] 491916000331 putative substrate binding site [chemical binding]; other site 491916000332 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 491916000333 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 491916000334 RNA binding site [nucleotide binding]; other site 491916000335 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 491916000336 RNA binding site [nucleotide binding]; other site 491916000337 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 491916000338 RNA binding site [nucleotide binding]; other site 491916000339 S1_RPS1_repeat_ec4: 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_ec4; cd05689 491916000340 RNA binding site [nucleotide binding]; other site 491916000341 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 491916000342 RNA binding site [nucleotide binding]; other site 491916000343 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 491916000344 RNA binding site [nucleotide binding]; other site 491916000345 cytidylate kinase; Provisional; Region: cmk; PRK00023 491916000346 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 491916000347 CMP-binding site; other site 491916000348 The sites determining sugar specificity; other site 491916000349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 491916000350 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 491916000351 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 491916000352 GIY-YIG motif/motif A; other site 491916000353 putative active site [active] 491916000354 putative metal binding site [ion binding]; other site 491916000355 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916000356 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 491916000357 putative active site [active] 491916000358 putative metal binding residues [ion binding]; other site 491916000359 signature motif; other site 491916000360 putative dimer interface [polypeptide binding]; other site 491916000361 putative phosphate binding site [ion binding]; other site 491916000362 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 491916000363 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 491916000364 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 491916000365 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 491916000366 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916000367 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916000368 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 491916000369 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 491916000370 Sulfate transporter family; Region: Sulfate_transp; pfam00916 491916000371 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 491916000372 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 491916000373 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 491916000374 Ion channel; Region: Ion_trans_2; pfam07885 491916000375 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 491916000376 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 491916000377 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916000378 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 491916000379 substrate binding pocket [chemical binding]; other site 491916000380 membrane-bound complex binding site; other site 491916000381 hinge residues; other site 491916000382 putrescine transporter; Provisional; Region: potE; PRK10655 491916000383 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 491916000384 ornithine decarboxylase; Provisional; Region: PRK13578 491916000385 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 491916000386 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916000387 catalytic residue [active] 491916000388 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 491916000389 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 491916000390 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 491916000391 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 491916000392 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916000393 catalytic residue [active] 491916000394 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 491916000395 Cation efflux family; Region: Cation_efflux; cl00316 491916000396 arginine:agmatin antiporter; Provisional; Region: PRK10644 491916000397 Spore germination protein; Region: Spore_permease; cl17796 491916000398 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 491916000399 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 491916000400 putative substrate binding site [chemical binding]; other site 491916000401 nucleotide binding site [chemical binding]; other site 491916000402 nucleotide binding site [chemical binding]; other site 491916000403 homodimer interface [polypeptide binding]; other site 491916000404 ornithine carbamoyltransferase; Validated; Region: PRK02102 491916000405 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491916000406 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 491916000407 arginine deiminase; Provisional; Region: PRK01388 491916000408 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 491916000409 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 491916000410 putative active site [active] 491916000411 heme pocket [chemical binding]; other site 491916000412 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 491916000413 dimer interface [polypeptide binding]; other site 491916000414 phosphorylation site [posttranslational modification] 491916000415 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 491916000416 ATP binding site [chemical binding]; other site 491916000417 Mg2+ binding site [ion binding]; other site 491916000418 G-X-G motif; other site 491916000419 response regulator FixJ; Provisional; Region: fixJ; PRK09390 491916000420 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 491916000421 active site 491916000422 phosphorylation site [posttranslational modification] 491916000423 intermolecular recognition site; other site 491916000424 dimerization interface [polypeptide binding]; other site 491916000425 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 491916000426 DNA binding residues [nucleotide binding] 491916000427 dimerization interface [polypeptide binding]; other site 491916000428 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916000429 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916000430 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 491916000431 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 491916000432 ligand binding site [chemical binding]; other site 491916000433 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 491916000434 putative switch regulator; other site 491916000435 non-specific DNA interactions [nucleotide binding]; other site 491916000436 DNA binding site [nucleotide binding] 491916000437 sequence specific DNA binding site [nucleotide binding]; other site 491916000438 putative cAMP binding site [chemical binding]; other site 491916000439 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 491916000440 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491916000441 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 491916000442 Predicted membrane protein [Function unknown]; Region: COG3619 491916000443 Uncharacterized conserved protein [Function unknown]; Region: COG1434 491916000444 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 491916000445 putative active site [active] 491916000446 Predicted membrane protein [Function unknown]; Region: COG2860 491916000447 UPF0126 domain; Region: UPF0126; pfam03458 491916000448 UPF0126 domain; Region: UPF0126; pfam03458 491916000449 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491916000450 metal binding site 2 [ion binding]; metal-binding site 491916000451 putative DNA binding helix; other site 491916000452 metal binding site 1 [ion binding]; metal-binding site 491916000453 dimer interface [polypeptide binding]; other site 491916000454 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 491916000455 active site 1 [active] 491916000456 dimer interface [polypeptide binding]; other site 491916000457 active site 2 [active] 491916000458 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 491916000459 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 491916000460 dimer interface [polypeptide binding]; other site 491916000461 active site 491916000462 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 491916000463 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 491916000464 NAD binding site [chemical binding]; other site 491916000465 homotetramer interface [polypeptide binding]; other site 491916000466 homodimer interface [polypeptide binding]; other site 491916000467 substrate binding site [chemical binding]; other site 491916000468 active site 491916000469 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 491916000470 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 491916000471 S-adenosylmethionine binding site [chemical binding]; other site 491916000472 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 491916000473 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 491916000474 RNase E interface [polypeptide binding]; other site 491916000475 trimer interface [polypeptide binding]; other site 491916000476 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 491916000477 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 491916000478 RNase E interface [polypeptide binding]; other site 491916000479 trimer interface [polypeptide binding]; other site 491916000480 active site 491916000481 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 491916000482 putative nucleic acid binding region [nucleotide binding]; other site 491916000483 G-X-X-G motif; other site 491916000484 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 491916000485 RNA binding site [nucleotide binding]; other site 491916000486 domain interface; other site 491916000487 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 491916000488 16S/18S rRNA binding site [nucleotide binding]; other site 491916000489 S13e-L30e interaction site [polypeptide binding]; other site 491916000490 25S rRNA binding site [nucleotide binding]; other site 491916000491 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916000492 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 491916000493 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 491916000494 RNA binding site [nucleotide binding]; other site 491916000495 active site 491916000496 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 491916000497 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 491916000498 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 491916000499 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 491916000500 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 491916000501 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 491916000502 G1 box; other site 491916000503 putative GEF interaction site [polypeptide binding]; other site 491916000504 GTP/Mg2+ binding site [chemical binding]; other site 491916000505 Switch I region; other site 491916000506 G2 box; other site 491916000507 G3 box; other site 491916000508 Switch II region; other site 491916000509 G4 box; other site 491916000510 G5 box; other site 491916000511 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 491916000512 Translation-initiation factor 2; Region: IF-2; pfam11987 491916000513 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 491916000514 hypothetical protein; Provisional; Region: PRK09190 491916000515 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 491916000516 putative RNA binding cleft [nucleotide binding]; other site 491916000517 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 491916000518 NusA N-terminal domain; Region: NusA_N; pfam08529 491916000519 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 491916000520 RNA binding site [nucleotide binding]; other site 491916000521 homodimer interface [polypeptide binding]; other site 491916000522 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 491916000523 G-X-X-G motif; other site 491916000524 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 491916000525 G-X-X-G motif; other site 491916000526 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 491916000527 ribosome maturation protein RimP; Reviewed; Region: PRK00092 491916000528 Sm and related proteins; Region: Sm_like; cl00259 491916000529 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 491916000530 putative oligomer interface [polypeptide binding]; other site 491916000531 putative RNA binding site [nucleotide binding]; other site 491916000532 Transmembrane secretion effector; Region: MFS_3; pfam05977 491916000533 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 491916000534 putative substrate translocation pore; other site 491916000535 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916000536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916000537 Coenzyme A binding pocket [chemical binding]; other site 491916000538 Transglycosylase SLT domain; Region: SLT_2; pfam13406 491916000539 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 491916000540 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491916000541 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916000542 recombination protein RecR; Reviewed; Region: recR; PRK00076 491916000543 RecR protein; Region: RecR; pfam02132 491916000544 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 491916000545 putative active site [active] 491916000546 putative metal-binding site [ion binding]; other site 491916000547 tetramer interface [polypeptide binding]; other site 491916000548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 491916000549 MOSC domain; Region: MOSC; pfam03473 491916000550 hypothetical protein; Validated; Region: PRK00153 491916000551 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 491916000552 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 491916000553 Walker A motif; other site 491916000554 ATP binding site [chemical binding]; other site 491916000555 Walker B motif; other site 491916000556 arginine finger; other site 491916000557 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 491916000558 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 491916000559 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 491916000560 nucleotide binding site/active site [active] 491916000561 HIT family signature motif; other site 491916000562 catalytic residue [active] 491916000563 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 491916000564 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 491916000565 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 491916000566 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 491916000567 putative NADH binding site [chemical binding]; other site 491916000568 putative active site [active] 491916000569 nudix motif; other site 491916000570 putative metal binding site [ion binding]; other site 491916000571 HTH domain; Region: HTH_11; pfam08279 491916000572 Predicted transcriptional regulator [Transcription]; Region: COG2378 491916000573 WYL domain; Region: WYL; pfam13280 491916000574 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 491916000575 putative dimer interface [polypeptide binding]; other site 491916000576 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916000577 prephenate dehydratase; Provisional; Region: PRK11899 491916000578 Prephenate dehydratase; Region: PDT; pfam00800 491916000579 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 491916000580 putative L-Phe binding site [chemical binding]; other site 491916000581 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 491916000582 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 491916000583 Ligand binding site; other site 491916000584 oligomer interface; other site 491916000585 Cytochrome c2 [Energy production and conversion]; Region: COG3474 491916000586 Predicted permeases [General function prediction only]; Region: COG0679 491916000587 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 491916000588 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916000589 substrate binding site [chemical binding]; other site 491916000590 ATP binding site [chemical binding]; other site 491916000591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 491916000592 Bacterial SH3 domain; Region: SH3_4; pfam06347 491916000593 Bacterial SH3 domain; Region: SH3_4; pfam06347 491916000594 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 491916000595 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 491916000596 dimerization interface [polypeptide binding]; other site 491916000597 ligand binding site [chemical binding]; other site 491916000598 NADP binding site [chemical binding]; other site 491916000599 catalytic site [active] 491916000600 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916000601 Coenzyme A binding pocket [chemical binding]; other site 491916000602 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 491916000603 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 491916000604 ATP binding site [chemical binding]; other site 491916000605 substrate interface [chemical binding]; other site 491916000606 recombination protein F; Reviewed; Region: recF; PRK00064 491916000607 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 491916000608 Walker A/P-loop; other site 491916000609 ATP binding site [chemical binding]; other site 491916000610 Q-loop/lid; other site 491916000611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916000612 ABC transporter signature motif; other site 491916000613 Walker B; other site 491916000614 D-loop; other site 491916000615 H-loop/switch region; other site 491916000616 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916000617 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 491916000618 non-specific DNA binding site [nucleotide binding]; other site 491916000619 salt bridge; other site 491916000620 sequence-specific DNA binding site [nucleotide binding]; other site 491916000621 chaperone protein DnaJ; Provisional; Region: PRK10767 491916000622 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 491916000623 HSP70 interaction site [polypeptide binding]; other site 491916000624 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 491916000625 substrate binding site [polypeptide binding]; other site 491916000626 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 491916000627 Zn binding sites [ion binding]; other site 491916000628 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 491916000629 dimer interface [polypeptide binding]; other site 491916000630 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 491916000631 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 491916000632 nucleotide binding site [chemical binding]; other site 491916000633 NEF interaction site [polypeptide binding]; other site 491916000634 SBD interface [polypeptide binding]; other site 491916000635 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 491916000636 Transglycosylase; Region: Transgly; pfam00912 491916000637 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491916000638 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 491916000639 Bacterial SH3 domain; Region: SH3_3; pfam08239 491916000640 hypothetical protein; Validated; Region: PRK09104 491916000641 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 491916000642 metal binding site [ion binding]; metal-binding site 491916000643 putative dimer interface [polypeptide binding]; other site 491916000644 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 491916000645 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 491916000646 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 491916000647 PAS domain S-box; Region: sensory_box; TIGR00229 491916000648 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916000649 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916000650 metal binding site [ion binding]; metal-binding site 491916000651 active site 491916000652 I-site; other site 491916000653 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 491916000654 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916000655 MarR family; Region: MarR_2; pfam12802 491916000656 DNA polymerase I; Region: pola; TIGR00593 491916000657 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 491916000658 active site 491916000659 metal binding site 1 [ion binding]; metal-binding site 491916000660 putative 5' ssDNA interaction site; other site 491916000661 metal binding site 3; metal-binding site 491916000662 metal binding site 2 [ion binding]; metal-binding site 491916000663 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 491916000664 putative DNA binding site [nucleotide binding]; other site 491916000665 putative metal binding site [ion binding]; other site 491916000666 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 491916000667 active site 491916000668 catalytic site [active] 491916000669 substrate binding site [chemical binding]; other site 491916000670 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 491916000671 active site 491916000672 DNA binding site [nucleotide binding] 491916000673 catalytic site [active] 491916000674 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 491916000675 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 491916000676 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 491916000677 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916000678 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 491916000679 dimer interface [polypeptide binding]; other site 491916000680 conserved gate region; other site 491916000681 putative PBP binding loops; other site 491916000682 ABC-ATPase subunit interface; other site 491916000683 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 491916000684 putative PBP binding loops; other site 491916000685 dimer interface [polypeptide binding]; other site 491916000686 ABC-ATPase subunit interface; other site 491916000687 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491916000688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916000689 Walker A/P-loop; other site 491916000690 ATP binding site [chemical binding]; other site 491916000691 Q-loop/lid; other site 491916000692 ABC transporter signature motif; other site 491916000693 Walker B; other site 491916000694 D-loop; other site 491916000695 H-loop/switch region; other site 491916000696 TOBE domain; Region: TOBE_2; pfam08402 491916000697 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 491916000698 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916000699 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916000700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916000701 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 491916000702 dimerization interface [polypeptide binding]; other site 491916000703 substrate binding pocket [chemical binding]; other site 491916000704 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 491916000705 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 491916000706 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 491916000707 active site 491916000708 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 491916000709 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 491916000710 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 491916000711 active site 491916000712 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 491916000713 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 491916000714 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 491916000715 dimer interface [polypeptide binding]; other site 491916000716 conserved gate region; other site 491916000717 putative PBP binding loops; other site 491916000718 ABC-ATPase subunit interface; other site 491916000719 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 491916000720 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 491916000721 dimer interface [polypeptide binding]; other site 491916000722 conserved gate region; other site 491916000723 ABC-ATPase subunit interface; other site 491916000724 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 491916000725 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 491916000726 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 491916000727 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 491916000728 Walker A/P-loop; other site 491916000729 ATP binding site [chemical binding]; other site 491916000730 Q-loop/lid; other site 491916000731 ABC transporter signature motif; other site 491916000732 Walker B; other site 491916000733 D-loop; other site 491916000734 H-loop/switch region; other site 491916000735 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 491916000736 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 491916000737 trimer interface [polypeptide binding]; other site 491916000738 active site 491916000739 substrate binding site [chemical binding]; other site 491916000740 CoA binding site [chemical binding]; other site 491916000741 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 491916000742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916000743 Walker A/P-loop; other site 491916000744 ATP binding site [chemical binding]; other site 491916000745 Q-loop/lid; other site 491916000746 ABC transporter signature motif; other site 491916000747 Walker B; other site 491916000748 D-loop; other site 491916000749 H-loop/switch region; other site 491916000750 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 491916000751 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916000752 Walker A/P-loop; other site 491916000753 ATP binding site [chemical binding]; other site 491916000754 Q-loop/lid; other site 491916000755 ABC transporter signature motif; other site 491916000756 Walker B; other site 491916000757 D-loop; other site 491916000758 H-loop/switch region; other site 491916000759 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916000760 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 491916000761 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 491916000762 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 491916000763 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 491916000764 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 491916000765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916000766 DNA-binding site [nucleotide binding]; DNA binding site 491916000767 UTRA domain; Region: UTRA; pfam07702 491916000768 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 491916000769 catalytic core [active] 491916000770 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 491916000771 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 491916000772 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 491916000773 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916000774 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916000775 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 491916000776 Walker A/P-loop; other site 491916000777 ATP binding site [chemical binding]; other site 491916000778 Q-loop/lid; other site 491916000779 ABC transporter signature motif; other site 491916000780 Walker B; other site 491916000781 D-loop; other site 491916000782 H-loop/switch region; other site 491916000783 glucokinase; Provisional; Region: glk; PRK00292 491916000784 glucokinase, proteobacterial type; Region: glk; TIGR00749 491916000785 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 491916000786 active site 491916000787 dimer interfaces [polypeptide binding]; other site 491916000788 catalytic residues [active] 491916000789 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 491916000790 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 491916000791 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 491916000792 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 491916000793 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 491916000794 dimer interface [polypeptide binding]; other site 491916000795 conserved gate region; other site 491916000796 putative PBP binding loops; other site 491916000797 ABC-ATPase subunit interface; other site 491916000798 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 491916000799 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 491916000800 dimer interface [polypeptide binding]; other site 491916000801 conserved gate region; other site 491916000802 putative PBP binding loops; other site 491916000803 ABC-ATPase subunit interface; other site 491916000804 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 491916000805 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916000806 Walker A/P-loop; other site 491916000807 ATP binding site [chemical binding]; other site 491916000808 Q-loop/lid; other site 491916000809 ABC transporter signature motif; other site 491916000810 Walker B; other site 491916000811 D-loop; other site 491916000812 H-loop/switch region; other site 491916000813 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 491916000814 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916000815 Walker A/P-loop; other site 491916000816 ATP binding site [chemical binding]; other site 491916000817 Q-loop/lid; other site 491916000818 ABC transporter signature motif; other site 491916000819 Walker B; other site 491916000820 D-loop; other site 491916000821 H-loop/switch region; other site 491916000822 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916000823 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 491916000824 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 491916000825 putative ligand binding site [chemical binding]; other site 491916000826 NAD binding site [chemical binding]; other site 491916000827 dimerization interface [polypeptide binding]; other site 491916000828 catalytic site [active] 491916000829 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 491916000830 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 491916000831 active site 491916000832 KTSC domain; Region: KTSC; pfam13619 491916000833 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 491916000834 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 491916000835 ligand binding site [chemical binding]; other site 491916000836 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 491916000837 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916000838 Walker A/P-loop; other site 491916000839 ATP binding site [chemical binding]; other site 491916000840 Q-loop/lid; other site 491916000841 ABC transporter signature motif; other site 491916000842 Walker B; other site 491916000843 D-loop; other site 491916000844 H-loop/switch region; other site 491916000845 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916000846 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916000847 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 491916000848 TM-ABC transporter signature motif; other site 491916000849 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916000850 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 491916000851 TM-ABC transporter signature motif; other site 491916000852 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 491916000853 active site 491916000854 catalytic motif [active] 491916000855 Zn binding site [ion binding]; other site 491916000856 purine nucleoside phosphorylase; Provisional; Region: PRK08202 491916000857 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 491916000858 intersubunit interface [polypeptide binding]; other site 491916000859 active site 491916000860 catalytic residue [active] 491916000861 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 491916000862 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 491916000863 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 491916000864 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 491916000865 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 491916000866 catalytic motif [active] 491916000867 Catalytic residue [active] 491916000868 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916000869 active site 491916000870 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 491916000871 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 491916000872 active site 491916000873 purine riboside binding site [chemical binding]; other site 491916000874 phosphopentomutase; Provisional; Region: PRK05362 491916000875 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 491916000876 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 491916000877 TadE-like protein; Region: TadE; pfam07811 491916000878 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 491916000879 TadE-like protein; Region: TadE; pfam07811 491916000880 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 491916000881 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 491916000882 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 491916000883 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 491916000884 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 491916000885 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 491916000886 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 491916000887 BON domain; Region: BON; pfam04972 491916000888 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 491916000889 Type IV pili component [Cell motility and secretion]; Region: COG5461 491916000890 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 491916000891 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 491916000892 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 491916000893 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 491916000894 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 491916000895 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 491916000896 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 491916000897 ATP binding site [chemical binding]; other site 491916000898 Walker A motif; other site 491916000899 hexamer interface [polypeptide binding]; other site 491916000900 Walker B motif; other site 491916000901 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 491916000902 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 491916000903 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 491916000904 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 491916000905 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916000906 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 491916000907 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 491916000908 TPR motif; other site 491916000909 binding surface 491916000910 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 491916000911 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 491916000912 interface (dimer of trimers) [polypeptide binding]; other site 491916000913 Substrate-binding/catalytic site; other site 491916000914 Zn-binding sites [ion binding]; other site 491916000915 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916000916 MarR family; Region: MarR_2; pfam12802 491916000917 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 491916000918 NlpC/P60 family; Region: NLPC_P60; pfam00877 491916000919 amidase; Provisional; Region: PRK07042 491916000920 Amidase; Region: Amidase; cl11426 491916000921 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916000922 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 491916000923 dimer interface [polypeptide binding]; other site 491916000924 conserved gate region; other site 491916000925 putative PBP binding loops; other site 491916000926 ABC-ATPase subunit interface; other site 491916000927 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916000928 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 491916000929 dimer interface [polypeptide binding]; other site 491916000930 conserved gate region; other site 491916000931 putative PBP binding loops; other site 491916000932 ABC-ATPase subunit interface; other site 491916000933 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916000934 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_6; cd08494 491916000935 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 491916000936 putative active site pocket [active] 491916000937 cleavage site 491916000938 hypothetical protein; Provisional; Region: PRK06149 491916000939 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 491916000940 active site 491916000941 ATP binding site [chemical binding]; other site 491916000942 substrate binding site [chemical binding]; other site 491916000943 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 491916000944 inhibitor-cofactor binding pocket; inhibition site 491916000945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916000946 catalytic residue [active] 491916000947 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 491916000948 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 491916000949 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 491916000950 putative active site [active] 491916000951 putative substrate binding site [chemical binding]; other site 491916000952 putative cosubstrate binding site; other site 491916000953 catalytic site [active] 491916000954 Acyltransferase family; Region: Acyl_transf_3; pfam01757 491916000955 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 491916000956 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 491916000957 Chain length determinant protein; Region: Wzz; cl15801 491916000958 BA14K-like protein; Region: BA14K; pfam07886 491916000959 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 491916000960 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 491916000961 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 491916000962 catalytic triad [active] 491916000963 maltose O-acetyltransferase; Provisional; Region: PRK10092 491916000964 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 491916000965 active site 491916000966 substrate binding site [chemical binding]; other site 491916000967 trimer interface [polypeptide binding]; other site 491916000968 CoA binding site [chemical binding]; other site 491916000969 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916000970 CcdB protein; Region: CcdB; cl03380 491916000971 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 491916000972 GTP-binding protein LepA; Provisional; Region: PRK05433 491916000973 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 491916000974 G1 box; other site 491916000975 putative GEF interaction site [polypeptide binding]; other site 491916000976 GTP/Mg2+ binding site [chemical binding]; other site 491916000977 Switch I region; other site 491916000978 G2 box; other site 491916000979 G3 box; other site 491916000980 Switch II region; other site 491916000981 G4 box; other site 491916000982 G5 box; other site 491916000983 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 491916000984 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 491916000985 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 491916000986 Putative transcription activator [Transcription]; Region: TenA; COG0819 491916000987 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916000988 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 491916000989 non-specific DNA binding site [nucleotide binding]; other site 491916000990 salt bridge; other site 491916000991 sequence-specific DNA binding site [nucleotide binding]; other site 491916000992 Cupin domain; Region: Cupin_2; pfam07883 491916000993 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 491916000994 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 491916000995 motif II; other site 491916000996 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 491916000997 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 491916000998 active site 491916000999 Zn binding site [ion binding]; other site 491916001000 recombination regulator RecX; Reviewed; Region: recX; PRK00117 491916001001 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 491916001002 EamA-like transporter family; Region: EamA; pfam00892 491916001003 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 491916001004 apolar tunnel; other site 491916001005 heme binding site [chemical binding]; other site 491916001006 dimerization interface [polypeptide binding]; other site 491916001007 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 491916001008 diiron binding motif [ion binding]; other site 491916001009 Uncharacterized conserved protein [Function unknown]; Region: COG1633 491916001010 CCC1-related protein family; Region: CCC1_like_1; cd02437 491916001011 yich00004; insertion sequence:Transposase, IS4-like 491916001012 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 491916001013 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 491916001014 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 491916001015 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 491916001016 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 491916001017 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 491916001018 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 491916001019 23S rRNA binding site [nucleotide binding]; other site 491916001020 L21 binding site [polypeptide binding]; other site 491916001021 L13 binding site [polypeptide binding]; other site 491916001022 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 491916001023 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 491916001024 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 491916001025 dimer interface [polypeptide binding]; other site 491916001026 motif 1; other site 491916001027 active site 491916001028 motif 2; other site 491916001029 motif 3; other site 491916001030 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 491916001031 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 491916001032 putative tRNA-binding site [nucleotide binding]; other site 491916001033 B3/4 domain; Region: B3_4; pfam03483 491916001034 tRNA synthetase B5 domain; Region: B5; smart00874 491916001035 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 491916001036 dimer interface [polypeptide binding]; other site 491916001037 motif 1; other site 491916001038 motif 3; other site 491916001039 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 491916001040 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 491916001041 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 491916001042 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916001043 active site 491916001044 catalytic tetrad [active] 491916001045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916001046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916001047 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 491916001048 putative effector binding pocket; other site 491916001049 putative dimerization interface [polypeptide binding]; other site 491916001050 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 491916001051 dimerization interface [polypeptide binding]; other site 491916001052 metal binding site [ion binding]; metal-binding site 491916001053 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916001054 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916001055 Coenzyme A binding pocket [chemical binding]; other site 491916001056 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 491916001057 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916001058 active site 491916001059 catalytic tetrad [active] 491916001060 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916001061 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916001062 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916001063 Predicted membrane protein [Function unknown]; Region: COG2246 491916001064 GtrA-like protein; Region: GtrA; pfam04138 491916001065 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 491916001066 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 491916001067 Ligand binding site; other site 491916001068 Putative Catalytic site; other site 491916001069 DXD motif; other site 491916001070 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 491916001071 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 491916001072 generic binding surface II; other site 491916001073 generic binding surface I; other site 491916001074 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 491916001075 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916001076 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916001077 MarR family; Region: MarR_2; cl17246 491916001078 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491916001079 EamA-like transporter family; Region: EamA; pfam00892 491916001080 EamA-like transporter family; Region: EamA; pfam00892 491916001081 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 491916001082 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 491916001083 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491916001084 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916001085 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 491916001086 N-terminal domain interface [polypeptide binding]; other site 491916001087 dimer interface [polypeptide binding]; other site 491916001088 substrate binding pocket (H-site) [chemical binding]; other site 491916001089 MarR family; Region: MarR_2; pfam12802 491916001090 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916001091 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 491916001092 putative deacylase active site [active] 491916001093 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 491916001094 ArsC family; Region: ArsC; pfam03960 491916001095 putative catalytic residues [active] 491916001096 Predicted deacylase [General function prediction only]; Region: COG3608 491916001097 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 491916001098 active site 491916001099 Zn binding site [ion binding]; other site 491916001100 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 491916001101 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 491916001102 DNA binding site [nucleotide binding] 491916001103 active site 491916001104 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 491916001105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916001106 NAD(P) binding site [chemical binding]; other site 491916001107 active site 491916001108 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 491916001109 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916001110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916001111 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 491916001112 putative effector binding pocket; other site 491916001113 putative dimerization interface [polypeptide binding]; other site 491916001114 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916001115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916001116 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 491916001117 substrate binding site [chemical binding]; other site 491916001118 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491916001119 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916001120 RibD C-terminal domain; Region: RibD_C; cl17279 491916001121 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 491916001122 WYL domain; Region: WYL; pfam13280 491916001123 GMP synthase; Reviewed; Region: guaA; PRK00074 491916001124 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 491916001125 AMP/PPi binding site [chemical binding]; other site 491916001126 candidate oxyanion hole; other site 491916001127 catalytic triad [active] 491916001128 potential glutamine specificity residues [chemical binding]; other site 491916001129 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 491916001130 ATP Binding subdomain [chemical binding]; other site 491916001131 Ligand Binding sites [chemical binding]; other site 491916001132 Dimerization subdomain; other site 491916001133 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 491916001134 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 491916001135 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 491916001136 CoenzymeA binding site [chemical binding]; other site 491916001137 subunit interaction site [polypeptide binding]; other site 491916001138 PHB binding site; other site 491916001139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 491916001140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 491916001141 Imelysin; Region: Peptidase_M75; cl09159 491916001142 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 491916001143 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 491916001144 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 491916001145 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 491916001146 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 491916001147 S-adenosylmethionine binding site [chemical binding]; other site 491916001148 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 491916001149 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 491916001150 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916001151 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 491916001152 putative NAD(P) binding site [chemical binding]; other site 491916001153 epoxyqueuosine reductase; Region: TIGR00276 491916001154 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 491916001155 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916001156 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 491916001157 C-terminal domain interface [polypeptide binding]; other site 491916001158 GSH binding site (G-site) [chemical binding]; other site 491916001159 dimer interface [polypeptide binding]; other site 491916001160 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 491916001161 N-terminal domain interface [polypeptide binding]; other site 491916001162 dimer interface [polypeptide binding]; other site 491916001163 substrate binding pocket (H-site) [chemical binding]; other site 491916001164 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 491916001165 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 491916001166 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 491916001167 putative NAD(P) binding site [chemical binding]; other site 491916001168 active site 491916001169 Uncharacterized conserved protein [Function unknown]; Region: COG5470 491916001170 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 491916001171 active site 491916001172 dimer interface [polypeptide binding]; other site 491916001173 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 491916001174 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 491916001175 S-adenosylmethionine binding site [chemical binding]; other site 491916001176 Protein of unknown function DUF72; Region: DUF72; pfam01904 491916001177 DNA polymerase III subunit beta; Validated; Region: PRK05643 491916001178 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 491916001179 putative DNA binding surface [nucleotide binding]; other site 491916001180 dimer interface [polypeptide binding]; other site 491916001181 beta-clamp/clamp loader binding surface; other site 491916001182 beta-clamp/translesion DNA polymerase binding surface; other site 491916001183 Predicted methyltransferases [General function prediction only]; Region: COG0313 491916001184 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 491916001185 putative SAM binding site [chemical binding]; other site 491916001186 putative homodimer interface [polypeptide binding]; other site 491916001187 hypothetical protein; Reviewed; Region: PRK12497 491916001188 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 491916001189 glutathione synthetase; Provisional; Region: PRK05246 491916001190 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 491916001191 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 491916001192 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 491916001193 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 491916001194 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 491916001195 Walker A motif; other site 491916001196 ATP binding site [chemical binding]; other site 491916001197 Walker B motif; other site 491916001198 arginine finger; other site 491916001199 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 491916001200 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 491916001201 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 491916001202 dimer interface [polypeptide binding]; other site 491916001203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916001204 catalytic residue [active] 491916001205 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916001206 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491916001207 EamA-like transporter family; Region: EamA; pfam00892 491916001208 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916001209 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 491916001210 AsnC family; Region: AsnC_trans_reg; pfam01037 491916001211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916001212 Coenzyme A binding pocket [chemical binding]; other site 491916001213 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 491916001214 trimer interface [polypeptide binding]; other site 491916001215 active site 491916001216 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 491916001217 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 491916001218 G1 box; other site 491916001219 putative GEF interaction site [polypeptide binding]; other site 491916001220 GTP/Mg2+ binding site [chemical binding]; other site 491916001221 Switch I region; other site 491916001222 G2 box; other site 491916001223 G3 box; other site 491916001224 Switch II region; other site 491916001225 G4 box; other site 491916001226 G5 box; other site 491916001227 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 491916001228 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 491916001229 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916001230 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916001231 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 491916001232 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916001233 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 491916001234 Walker A/P-loop; other site 491916001235 ATP binding site [chemical binding]; other site 491916001236 Q-loop/lid; other site 491916001237 ABC transporter signature motif; other site 491916001238 Walker B; other site 491916001239 D-loop; other site 491916001240 H-loop/switch region; other site 491916001241 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916001242 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 491916001243 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 491916001244 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 491916001245 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 491916001246 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916001247 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916001248 DNA-binding site [nucleotide binding]; DNA binding site 491916001249 FCD domain; Region: FCD; pfam07729 491916001250 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 491916001251 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 491916001252 putative active site [active] 491916001253 putative dimer interface [polypeptide binding]; other site 491916001254 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 491916001255 Flavoprotein; Region: Flavoprotein; pfam02441 491916001256 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 491916001257 short chain dehydrogenase; Provisional; Region: PRK07478 491916001258 classical (c) SDRs; Region: SDR_c; cd05233 491916001259 NAD(P) binding site [chemical binding]; other site 491916001260 active site 491916001261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916001262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916001263 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 491916001264 putative effector binding pocket; other site 491916001265 dimerization interface [polypeptide binding]; other site 491916001266 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491916001267 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 491916001268 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 491916001269 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_2; cd07253 491916001270 dimer interface [polypeptide binding]; other site 491916001271 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916001272 metal binding site [ion binding]; metal-binding site 491916001273 urocanate hydratase; Provisional; Region: PRK05414 491916001274 Protein of unknown function (DUF917); Region: DUF917; pfam06032 491916001275 allantoate amidohydrolase; Reviewed; Region: PRK12893 491916001276 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 491916001277 active site 491916001278 metal binding site [ion binding]; metal-binding site 491916001279 dimer interface [polypeptide binding]; other site 491916001280 allantoinase; Provisional; Region: PRK06189 491916001281 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 491916001282 active site 491916001283 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 491916001284 active sites [active] 491916001285 tetramer interface [polypeptide binding]; other site 491916001286 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 491916001287 ABC1 family; Region: ABC1; pfam03109 491916001288 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 491916001289 active site 491916001290 ATP binding site [chemical binding]; other site 491916001291 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 491916001292 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 491916001293 S-adenosylmethionine binding site [chemical binding]; other site 491916001294 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 491916001295 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 491916001296 DNA binding site [nucleotide binding] 491916001297 catalytic residue [active] 491916001298 H2TH interface [polypeptide binding]; other site 491916001299 putative catalytic residues [active] 491916001300 turnover-facilitating residue; other site 491916001301 intercalation triad [nucleotide binding]; other site 491916001302 8OG recognition residue [nucleotide binding]; other site 491916001303 putative reading head residues; other site 491916001304 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 491916001305 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 491916001306 enoyl-CoA hydratase; Provisional; Region: PRK05862 491916001307 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 491916001308 substrate binding site [chemical binding]; other site 491916001309 oxyanion hole (OAH) forming residues; other site 491916001310 trimer interface [polypeptide binding]; other site 491916001311 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 491916001312 DnaA N-terminal domain; Region: DnaA_N; pfam11638 491916001313 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 491916001314 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 491916001315 Walker A motif; other site 491916001316 ATP binding site [chemical binding]; other site 491916001317 Walker B motif; other site 491916001318 arginine finger; other site 491916001319 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 491916001320 DnaA box-binding interface [nucleotide binding]; other site 491916001321 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 491916001322 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916001323 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 491916001324 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 491916001325 FeS/SAM binding site; other site 491916001326 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 491916001327 active site 491916001328 dimerization interface [polypeptide binding]; other site 491916001329 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_13; cd08354 491916001330 putative metal binding site [ion binding]; other site 491916001331 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916001332 ribonuclease PH; Reviewed; Region: rph; PRK00173 491916001333 Ribonuclease PH; Region: RNase_PH_bact; cd11362 491916001334 hexamer interface [polypeptide binding]; other site 491916001335 active site 491916001336 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 491916001337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 491916001338 DNA-binding site [nucleotide binding]; DNA binding site 491916001339 heat shock protein GrpE; Provisional; Region: PRK14141 491916001340 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 491916001341 dimer interface [polypeptide binding]; other site 491916001342 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 491916001343 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 491916001344 active site 491916001345 tetramer interface [polypeptide binding]; other site 491916001346 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 491916001347 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 491916001348 putative dimer interface [polypeptide binding]; other site 491916001349 Uncharacterized small protein [Function unknown]; Region: COG5568 491916001350 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 491916001351 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 491916001352 S-adenosylmethionine binding site [chemical binding]; other site 491916001353 S-adenosylmethionine synthetase; Validated; Region: PRK05250 491916001354 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 491916001355 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 491916001356 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 491916001357 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916001358 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 491916001359 non-specific DNA binding site [nucleotide binding]; other site 491916001360 salt bridge; other site 491916001361 sequence-specific DNA binding site [nucleotide binding]; other site 491916001362 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 491916001363 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 491916001364 putative active site [active] 491916001365 catalytic triad [active] 491916001366 putative dimer interface [polypeptide binding]; other site 491916001367 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 491916001368 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 491916001369 Transporter associated domain; Region: CorC_HlyC; smart01091 491916001370 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 491916001371 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 491916001372 PhoH-like protein; Region: PhoH; pfam02562 491916001373 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 491916001374 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 491916001375 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 491916001376 FeS/SAM binding site; other site 491916001377 TRAM domain; Region: TRAM; pfam01938 491916001378 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491916001379 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491916001380 putative acyl-acceptor binding pocket; other site 491916001381 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491916001382 metal binding site 2 [ion binding]; metal-binding site 491916001383 putative DNA binding helix; other site 491916001384 metal binding site 1 [ion binding]; metal-binding site 491916001385 dimer interface [polypeptide binding]; other site 491916001386 structural Zn2+ binding site [ion binding]; other site 491916001387 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916001388 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916001389 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 491916001390 Glycoprotease family; Region: Peptidase_M22; pfam00814 491916001391 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 491916001392 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 491916001393 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 491916001394 Ligand Binding Site [chemical binding]; other site 491916001395 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 491916001396 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 491916001397 active site 491916001398 HIGH motif; other site 491916001399 dimer interface [polypeptide binding]; other site 491916001400 KMSKS motif; other site 491916001401 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 491916001402 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916001403 Peptidase M15; Region: Peptidase_M15_3; cl01194 491916001404 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 491916001405 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 491916001406 PII uridylyl-transferase; Provisional; Region: PRK05092 491916001407 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 491916001408 metal binding triad; other site 491916001409 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 491916001410 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491916001411 Zn2+ binding site [ion binding]; other site 491916001412 Mg2+ binding site [ion binding]; other site 491916001413 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 491916001414 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 491916001415 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 491916001416 MutS domain I; Region: MutS_I; pfam01624 491916001417 MutS domain II; Region: MutS_II; pfam05188 491916001418 MutS domain III; Region: MutS_III; pfam05192 491916001419 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 491916001420 Walker A/P-loop; other site 491916001421 ATP binding site [chemical binding]; other site 491916001422 Q-loop/lid; other site 491916001423 ABC transporter signature motif; other site 491916001424 Walker B; other site 491916001425 D-loop; other site 491916001426 H-loop/switch region; other site 491916001427 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 491916001428 Malic enzyme, N-terminal domain; Region: malic; pfam00390 491916001429 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 491916001430 putative NAD(P) binding site [chemical binding]; other site 491916001431 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 491916001432 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916001433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916001434 Putative hemolysin [General function prediction only]; Region: COG3176 491916001435 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 491916001436 dimer interface [polypeptide binding]; other site 491916001437 phosphorylation site [posttranslational modification] 491916001438 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 491916001439 ATP binding site [chemical binding]; other site 491916001440 Mg2+ binding site [ion binding]; other site 491916001441 G-X-G motif; other site 491916001442 Response regulator receiver domain; Region: Response_reg; pfam00072 491916001443 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 491916001444 active site 491916001445 phosphorylation site [posttranslational modification] 491916001446 intermolecular recognition site; other site 491916001447 dimerization interface [polypeptide binding]; other site 491916001448 lipoprotein signal peptidase; Provisional; Region: PRK14795 491916001449 lipoprotein signal peptidase; Provisional; Region: PRK14787 491916001450 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 491916001451 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 491916001452 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 491916001453 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 491916001454 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 491916001455 dimer interface [polypeptide binding]; other site 491916001456 ADP-ribose binding site [chemical binding]; other site 491916001457 active site 491916001458 nudix motif; other site 491916001459 metal binding site [ion binding]; metal-binding site 491916001460 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 491916001461 putative hydrophobic ligand binding site [chemical binding]; other site 491916001462 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491916001463 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916001464 Coenzyme A binding pocket [chemical binding]; other site 491916001465 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 491916001466 IHF dimer interface [polypeptide binding]; other site 491916001467 IHF - DNA interface [nucleotide binding]; other site 491916001468 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 491916001469 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 491916001470 tandem repeat interface [polypeptide binding]; other site 491916001471 oligomer interface [polypeptide binding]; other site 491916001472 active site residues [active] 491916001473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 491916001474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 491916001475 OstA-like protein; Region: OstA; cl00844 491916001476 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 491916001477 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 491916001478 Walker A/P-loop; other site 491916001479 ATP binding site [chemical binding]; other site 491916001480 Q-loop/lid; other site 491916001481 ABC transporter signature motif; other site 491916001482 Walker B; other site 491916001483 D-loop; other site 491916001484 H-loop/switch region; other site 491916001485 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 491916001486 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 491916001487 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 491916001488 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 491916001489 EamA-like transporter family; Region: EamA; pfam00892 491916001490 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 491916001491 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 491916001492 30S subunit binding site; other site 491916001493 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 491916001494 active site 491916001495 phosphorylation site [posttranslational modification] 491916001496 Cache domain; Region: Cache_1; pfam02743 491916001497 HAMP domain; Region: HAMP; pfam00672 491916001498 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 491916001499 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916001500 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916001501 dimer interface [polypeptide binding]; other site 491916001502 putative CheW interface [polypeptide binding]; other site 491916001503 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916001504 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 491916001505 substrate binding site [chemical binding]; other site 491916001506 dimer interface [polypeptide binding]; other site 491916001507 ATP binding site [chemical binding]; other site 491916001508 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 491916001509 RmuC family; Region: RmuC; pfam02646 491916001510 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 491916001511 heme-binding site [chemical binding]; other site 491916001512 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916001513 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916001514 dimer interface [polypeptide binding]; other site 491916001515 putative CheW interface [polypeptide binding]; other site 491916001516 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 491916001517 active site 491916001518 catalytic residues [active] 491916001519 metal binding site [ion binding]; metal-binding site 491916001520 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 491916001521 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 491916001522 oligomeric interface; other site 491916001523 putative active site [active] 491916001524 homodimer interface [polypeptide binding]; other site 491916001525 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 491916001526 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 491916001527 putative active site [active] 491916001528 substrate binding site [chemical binding]; other site 491916001529 putative cosubstrate binding site; other site 491916001530 catalytic site [active] 491916001531 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 491916001532 substrate binding site [chemical binding]; other site 491916001533 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 491916001534 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 491916001535 dimerization interface 3.5A [polypeptide binding]; other site 491916001536 active site 491916001537 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 491916001538 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 491916001539 metal binding site [ion binding]; metal-binding site 491916001540 dimer interface [polypeptide binding]; other site 491916001541 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 491916001542 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 491916001543 trimer interface [polypeptide binding]; other site 491916001544 active site 491916001545 substrate binding site [chemical binding]; other site 491916001546 CoA binding site [chemical binding]; other site 491916001547 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 491916001548 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 491916001549 Ca2+ binding site [ion binding]; other site 491916001550 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 491916001551 Ca2+ binding site [ion binding]; other site 491916001552 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 491916001553 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 491916001554 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 491916001555 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 491916001556 FeS/SAM binding site; other site 491916001557 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 491916001558 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 491916001559 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 491916001560 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 491916001561 DNA binding site [nucleotide binding] 491916001562 active site 491916001563 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 491916001564 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 491916001565 tetramer interface [polypeptide binding]; other site 491916001566 active site 491916001567 Mg2+/Mn2+ binding site [ion binding]; other site 491916001568 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 491916001569 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 491916001570 phosphate binding site [ion binding]; other site 491916001571 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 491916001572 homohexameric interface [polypeptide binding]; other site 491916001573 feedback inhibition sensing region; other site 491916001574 carbamate kinase; Reviewed; Region: PRK12686 491916001575 nucleotide binding site [chemical binding]; other site 491916001576 N-acetyl-L-glutamate binding site [chemical binding]; other site 491916001577 RNA polymerase sigma factor; Provisional; Region: PRK12514 491916001578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916001579 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 491916001580 DNA binding residues [nucleotide binding] 491916001581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 491916001582 Anti-sigma-K factor rskA; Region: RskA; pfam10099 491916001583 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 491916001584 Fasciclin domain; Region: Fasciclin; pfam02469 491916001585 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 491916001586 Histidine kinase; Region: HisKA_2; pfam07568 491916001587 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 491916001588 ATP binding site [chemical binding]; other site 491916001589 Mg2+ binding site [ion binding]; other site 491916001590 G-X-G motif; other site 491916001591 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 491916001592 DNA-binding site [nucleotide binding]; DNA binding site 491916001593 RNA-binding motif; other site 491916001594 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 491916001595 G1 box; other site 491916001596 GTP/Mg2+ binding site [chemical binding]; other site 491916001597 Switch I region; other site 491916001598 G2 box; other site 491916001599 G3 box; other site 491916001600 Switch II region; other site 491916001601 G4 box; other site 491916001602 G5 box; other site 491916001603 membrane protein insertase; Provisional; Region: PRK01318 491916001604 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 491916001605 ribonuclease P; Reviewed; Region: rnpA; PRK01313 491916001606 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 491916001607 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 491916001608 dimerization interface [polypeptide binding]; other site 491916001609 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916001610 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916001611 dimer interface [polypeptide binding]; other site 491916001612 putative CheW interface [polypeptide binding]; other site 491916001613 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916001614 HAMP domain; Region: HAMP; pfam00672 491916001615 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 491916001616 ATP binding site [chemical binding]; other site 491916001617 Mg2+ binding site [ion binding]; other site 491916001618 G-X-G motif; other site 491916001619 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 491916001620 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 491916001621 yich00005; insertion sequence:Resolvase, N-terminal 491916001622 large terminase protein; Provisional; Region: 17; PHA02533 491916001623 Terminase-like family; Region: Terminase_6; pfam03237 491916001624 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 491916001625 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 491916001626 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 491916001627 yich00006; insertion sequence:Integrase, catalytic core, phage 491916001628 DNA methylase; Region: N6_N4_Mtase; cl17433 491916001629 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 491916001630 S-adenosylmethionine binding site [chemical binding]; other site 491916001631 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 491916001632 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916001633 active site 491916001634 catalytic tetrad [active] 491916001635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 491916001636 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 491916001637 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916001638 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 491916001639 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 491916001640 TfoX N-terminal domain; Region: TfoX_N; pfam04993 491916001641 SnoaL-like domain; Region: SnoaL_2; pfam12680 491916001642 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916001643 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916001644 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; cl17355 491916001645 DNA binding site [nucleotide binding] 491916001646 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916001647 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 491916001648 TPR motif; other site 491916001649 TPR repeat; Region: TPR_11; pfam13414 491916001650 binding surface 491916001651 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 491916001652 TPR motif; other site 491916001653 binding surface 491916001654 Cupin domain; Region: Cupin_2; cl17218 491916001655 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 491916001656 homotrimer interaction site [polypeptide binding]; other site 491916001657 putative active site [active] 491916001658 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916001659 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916001660 metal binding site [ion binding]; metal-binding site 491916001661 active site 491916001662 I-site; other site 491916001663 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 491916001664 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 491916001665 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 491916001666 putative NAD(P) binding site [chemical binding]; other site 491916001667 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916001668 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916001669 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 491916001670 dimanganese center [ion binding]; other site 491916001671 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 491916001672 dimerization interface [polypeptide binding]; other site 491916001673 metal binding site [ion binding]; metal-binding site 491916001674 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 491916001675 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 491916001676 non-specific DNA interactions [nucleotide binding]; other site 491916001677 DNA binding site [nucleotide binding] 491916001678 sequence specific DNA binding site [nucleotide binding]; other site 491916001679 putative cAMP binding site [chemical binding]; other site 491916001680 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916001681 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491916001682 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 491916001683 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916001684 ligand binding site [chemical binding]; other site 491916001685 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916001686 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 491916001687 TM-ABC transporter signature motif; other site 491916001688 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916001689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916001690 Walker A/P-loop; other site 491916001691 ATP binding site [chemical binding]; other site 491916001692 Q-loop/lid; other site 491916001693 ABC transporter signature motif; other site 491916001694 Walker B; other site 491916001695 D-loop; other site 491916001696 H-loop/switch region; other site 491916001697 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 491916001698 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 491916001699 active site 491916001700 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 491916001701 active site 491916001702 substrate binding pocket [chemical binding]; other site 491916001703 dimer interface [polypeptide binding]; other site 491916001704 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916001705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916001706 metal binding site [ion binding]; metal-binding site 491916001707 active site 491916001708 I-site; other site 491916001709 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 491916001710 dimer interface [polypeptide binding]; other site 491916001711 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916001712 ligand binding site [chemical binding]; other site 491916001713 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 491916001714 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916001715 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916001716 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916001717 active site 491916001718 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916001719 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 491916001720 putative substrate binding site [chemical binding]; other site 491916001721 putative ATP binding site [chemical binding]; other site 491916001722 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 491916001723 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 491916001724 active site 491916001725 homotetramer interface [polypeptide binding]; other site 491916001726 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 491916001727 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 491916001728 active site 491916001729 dimer interface [polypeptide binding]; other site 491916001730 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 491916001731 dimer interface [polypeptide binding]; other site 491916001732 active site 491916001733 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 491916001734 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 491916001735 acyl-activating enzyme (AAE) consensus motif; other site 491916001736 putative AMP binding site [chemical binding]; other site 491916001737 putative active site [active] 491916001738 putative CoA binding site [chemical binding]; other site 491916001739 PRC-barrel domain; Region: PRC; pfam05239 491916001740 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 491916001741 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 491916001742 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 491916001743 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 491916001744 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916001745 dimer interface [polypeptide binding]; other site 491916001746 active site 491916001747 glutathione binding site [chemical binding]; other site 491916001748 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 491916001749 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 491916001750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916001751 Walker A/P-loop; other site 491916001752 ATP binding site [chemical binding]; other site 491916001753 Q-loop/lid; other site 491916001754 ABC transporter signature motif; other site 491916001755 Walker B; other site 491916001756 D-loop; other site 491916001757 H-loop/switch region; other site 491916001758 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 491916001759 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 491916001760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916001761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916001762 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916001763 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 491916001764 dimerization interface [polypeptide binding]; other site 491916001765 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 491916001766 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 491916001767 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491916001768 putative NAD(P) binding site [chemical binding]; other site 491916001769 catalytic Zn binding site [ion binding]; other site 491916001770 structural Zn binding site [ion binding]; other site 491916001771 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916001772 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 491916001773 TM-ABC transporter signature motif; other site 491916001774 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916001775 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916001776 Walker A/P-loop; other site 491916001777 ATP binding site [chemical binding]; other site 491916001778 Q-loop/lid; other site 491916001779 ABC transporter signature motif; other site 491916001780 Walker B; other site 491916001781 D-loop; other site 491916001782 H-loop/switch region; other site 491916001783 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916001784 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916001785 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 491916001786 putative ligand binding site [chemical binding]; other site 491916001787 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 491916001788 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 491916001789 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916001790 active site 491916001791 catalytic tetrad [active] 491916001792 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 491916001793 galactarate dehydratase; Region: galactar-dH20; TIGR03248 491916001794 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 491916001795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916001796 DNA-binding site [nucleotide binding]; DNA binding site 491916001797 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916001798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 491916001799 DNA-binding site [nucleotide binding]; DNA binding site 491916001800 FCD domain; Region: FCD; pfam07729 491916001801 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 491916001802 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 491916001803 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 491916001804 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 491916001805 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916001806 putative substrate translocation pore; other site 491916001807 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 491916001808 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 491916001809 FMN binding site [chemical binding]; other site 491916001810 substrate binding site [chemical binding]; other site 491916001811 putative catalytic residue [active] 491916001812 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 491916001813 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 491916001814 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 491916001815 dimer interface [polypeptide binding]; other site 491916001816 phosphorylation site [posttranslational modification] 491916001817 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 491916001818 ATP binding site [chemical binding]; other site 491916001819 Mg2+ binding site [ion binding]; other site 491916001820 G-X-G motif; other site 491916001821 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 491916001822 putative active site [active] 491916001823 PBP superfamily domain; Region: PBP_like_2; pfam12849 491916001824 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 491916001825 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 491916001826 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 491916001827 dimer interface [polypeptide binding]; other site 491916001828 conserved gate region; other site 491916001829 putative PBP binding loops; other site 491916001830 ABC-ATPase subunit interface; other site 491916001831 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 491916001832 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 491916001833 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 491916001834 dimer interface [polypeptide binding]; other site 491916001835 conserved gate region; other site 491916001836 putative PBP binding loops; other site 491916001837 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 491916001838 ABC-ATPase subunit interface; other site 491916001839 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 491916001840 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 491916001841 Walker A/P-loop; other site 491916001842 ATP binding site [chemical binding]; other site 491916001843 Q-loop/lid; other site 491916001844 ABC transporter signature motif; other site 491916001845 Walker B; other site 491916001846 D-loop; other site 491916001847 H-loop/switch region; other site 491916001848 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 491916001849 PhoU domain; Region: PhoU; pfam01895 491916001850 PhoU domain; Region: PhoU; pfam01895 491916001851 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 491916001852 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 491916001853 active site 491916001854 phosphorylation site [posttranslational modification] 491916001855 intermolecular recognition site; other site 491916001856 dimerization interface [polypeptide binding]; other site 491916001857 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 491916001858 DNA binding site [nucleotide binding] 491916001859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 491916001860 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 491916001861 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 491916001862 inhibitor-cofactor binding pocket; inhibition site 491916001863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916001864 catalytic residue [active] 491916001865 ornithine carbamoyltransferase; Provisional; Region: PRK00779 491916001866 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491916001867 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 491916001868 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 491916001869 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 491916001870 dimerization interface [polypeptide binding]; other site 491916001871 domain crossover interface; other site 491916001872 redox-dependent activation switch; other site 491916001873 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 491916001874 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 491916001875 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 491916001876 homodimer interface [polypeptide binding]; other site 491916001877 substrate-cofactor binding pocket; other site 491916001878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916001879 catalytic residue [active] 491916001880 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 491916001881 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 491916001882 trimer interface [polypeptide binding]; other site 491916001883 active site 491916001884 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 491916001885 trimer interface [polypeptide binding]; other site 491916001886 active site 491916001887 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916001888 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 491916001889 active site 491916001890 metal binding site [ion binding]; metal-binding site 491916001891 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916001892 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916001893 dimer interface [polypeptide binding]; other site 491916001894 putative CheW interface [polypeptide binding]; other site 491916001895 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916001896 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 491916001897 substrate binding pocket [chemical binding]; other site 491916001898 membrane-bound complex binding site; other site 491916001899 hinge residues; other site 491916001900 tellurite resistance protein terB; Region: terB; cd07176 491916001901 putative metal binding site [ion binding]; other site 491916001902 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 491916001903 Predicted transcriptional regulator [Transcription]; Region: COG2932 491916001904 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 491916001905 Catalytic site [active] 491916001906 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916001907 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 491916001908 active site 491916001909 phosphorylation site [posttranslational modification] 491916001910 intermolecular recognition site; other site 491916001911 dimerization interface [polypeptide binding]; other site 491916001912 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 491916001913 DNA binding residues [nucleotide binding] 491916001914 dimerization interface [polypeptide binding]; other site 491916001915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 491916001916 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 491916001917 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 491916001918 quinone interaction residues [chemical binding]; other site 491916001919 active site 491916001920 catalytic residues [active] 491916001921 FMN binding site [chemical binding]; other site 491916001922 substrate binding site [chemical binding]; other site 491916001923 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 491916001924 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 491916001925 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 491916001926 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 491916001927 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 491916001928 Methyltransferase domain; Region: Methyltransf_12; pfam08242 491916001929 Uncharacterized conserved protein [Function unknown]; Region: COG1284 491916001930 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 491916001931 yich00007; insertion sequence:Integrase, catalytic core 491916001932 Uncharacterized conserved protein [Function unknown]; Region: COG2128 491916001933 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 491916001934 Predicted transcriptional regulator [Transcription]; Region: COG1959 491916001935 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 491916001936 dimerization interface [polypeptide binding]; other site 491916001937 putative Zn2+ binding site [ion binding]; other site 491916001938 putative DNA binding site [nucleotide binding]; other site 491916001939 Uncharacterized conserved protein [Function unknown]; Region: COG1284 491916001940 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 491916001941 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 491916001942 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 491916001943 ATP binding site [chemical binding]; other site 491916001944 putative Mg++ binding site [ion binding]; other site 491916001945 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 491916001946 nucleotide binding region [chemical binding]; other site 491916001947 ATP-binding site [chemical binding]; other site 491916001948 DEAD/H associated; Region: DEAD_assoc; pfam08494 491916001949 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491916001950 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 491916001951 putative active site [active] 491916001952 putative metal binding site [ion binding]; other site 491916001953 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 491916001954 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491916001955 catalytic residue [active] 491916001956 RibD C-terminal domain; Region: RibD_C; cl17279 491916001957 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 491916001958 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 491916001959 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491916001960 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 491916001961 Sel1-like repeats; Region: SEL1; smart00671 491916001962 Sel1-like repeats; Region: SEL1; smart00671 491916001963 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 491916001964 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916001965 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916001966 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_9; cd07245 491916001967 dimer interface [polypeptide binding]; other site 491916001968 putative metal binding site [ion binding]; other site 491916001969 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 491916001970 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 491916001971 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 491916001972 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 491916001973 FAD binding site [chemical binding]; other site 491916001974 substrate binding site [chemical binding]; other site 491916001975 catalytic residues [active] 491916001976 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 491916001977 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 491916001978 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 491916001979 dimer interface [polypeptide binding]; other site 491916001980 active site 491916001981 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 491916001982 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 491916001983 substrate binding site [chemical binding]; other site 491916001984 oxyanion hole (OAH) forming residues; other site 491916001985 trimer interface [polypeptide binding]; other site 491916001986 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 491916001987 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 491916001988 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 491916001989 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 491916001990 DNA-binding site [nucleotide binding]; DNA binding site 491916001991 RNA-binding motif; other site 491916001992 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916001993 MarR family; Region: MarR_2; pfam12802 491916001994 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916001995 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 491916001996 SnoaL-like domain; Region: SnoaL_3; pfam13474 491916001997 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916001998 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; cl17904 491916001999 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916002000 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916002001 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 491916002002 Na binding site [ion binding]; other site 491916002003 PAS fold; Region: PAS_7; pfam12860 491916002004 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916002005 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 491916002006 dimer interface [polypeptide binding]; other site 491916002007 phosphorylation site [posttranslational modification] 491916002008 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 491916002009 ATP binding site [chemical binding]; other site 491916002010 Mg2+ binding site [ion binding]; other site 491916002011 G-X-G motif; other site 491916002012 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916002013 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 491916002014 active site 491916002015 phosphorylation site [posttranslational modification] 491916002016 intermolecular recognition site; other site 491916002017 dimerization interface [polypeptide binding]; other site 491916002018 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 491916002019 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 491916002020 aspartate aminotransferase; Provisional; Region: PRK06108 491916002021 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 491916002022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916002023 homodimer interface [polypeptide binding]; other site 491916002024 catalytic residue [active] 491916002025 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 491916002026 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 491916002027 NAD binding site [chemical binding]; other site 491916002028 homodimer interface [polypeptide binding]; other site 491916002029 active site 491916002030 substrate binding site [chemical binding]; other site 491916002031 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 491916002032 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916002033 metal binding site [ion binding]; metal-binding site 491916002034 active site 491916002035 I-site; other site 491916002036 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 491916002037 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 491916002038 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 491916002039 substrate binding site [chemical binding]; other site 491916002040 oxyanion hole (OAH) forming residues; other site 491916002041 trimer interface [polypeptide binding]; other site 491916002042 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 491916002043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491916002044 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 491916002045 Part of AAA domain; Region: AAA_19; pfam13245 491916002046 Family description; Region: UvrD_C_2; pfam13538 491916002047 BON domain; Region: BON; pfam04972 491916002048 Protein of unknown function (DUF982); Region: DUF982; pfam06169 491916002049 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 491916002050 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 491916002051 hinge; other site 491916002052 active site 491916002053 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 491916002054 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 491916002055 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 491916002056 NAD binding site [chemical binding]; other site 491916002057 dimerization interface [polypeptide binding]; other site 491916002058 product binding site; other site 491916002059 substrate binding site [chemical binding]; other site 491916002060 zinc binding site [ion binding]; other site 491916002061 catalytic residues [active] 491916002062 hypothetical protein; Provisional; Region: PRK02853 491916002063 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491916002064 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 491916002065 active site 491916002066 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 491916002067 rRNA binding site [nucleotide binding]; other site 491916002068 predicted 30S ribosome binding site; other site 491916002069 Maf-like protein; Region: Maf; pfam02545 491916002070 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 491916002071 active site 491916002072 dimer interface [polypeptide binding]; other site 491916002073 zinc-binding protein; Provisional; Region: PRK01343 491916002074 PRC-barrel domain; Region: PRC; pfam05239 491916002075 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 491916002076 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 491916002077 yich00008; insertion sequence:Transposase IS3/IS911 491916002078 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 491916002079 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916002080 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 491916002081 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916002082 Walker A/P-loop; other site 491916002083 ATP binding site [chemical binding]; other site 491916002084 Q-loop/lid; other site 491916002085 ABC transporter signature motif; other site 491916002086 Walker B; other site 491916002087 D-loop; other site 491916002088 H-loop/switch region; other site 491916002089 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916002090 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 491916002091 DNA binding residues [nucleotide binding] 491916002092 dimerization interface [polypeptide binding]; other site 491916002093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916002094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916002095 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 491916002096 dimerization interface [polypeptide binding]; other site 491916002097 DoxX-like family; Region: DoxX_2; pfam13564 491916002098 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 491916002099 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 491916002100 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916002101 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916002102 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 491916002103 homotrimer interaction site [polypeptide binding]; other site 491916002104 putative active site [active] 491916002105 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916002106 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916002107 inhibitor site; inhibition site 491916002108 active site 491916002109 dimer interface [polypeptide binding]; other site 491916002110 catalytic residue [active] 491916002111 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 491916002112 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916002113 Walker A/P-loop; other site 491916002114 ATP binding site [chemical binding]; other site 491916002115 Q-loop/lid; other site 491916002116 ABC transporter signature motif; other site 491916002117 Walker B; other site 491916002118 D-loop; other site 491916002119 H-loop/switch region; other site 491916002120 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916002121 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 491916002122 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916002123 Walker A/P-loop; other site 491916002124 ATP binding site [chemical binding]; other site 491916002125 Q-loop/lid; other site 491916002126 ABC transporter signature motif; other site 491916002127 Walker B; other site 491916002128 D-loop; other site 491916002129 H-loop/switch region; other site 491916002130 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491916002131 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916002132 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916002133 inhibitor site; inhibition site 491916002134 active site 491916002135 dimer interface [polypeptide binding]; other site 491916002136 catalytic residue [active] 491916002137 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916002138 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 491916002139 dimer interface [polypeptide binding]; other site 491916002140 conserved gate region; other site 491916002141 putative PBP binding loops; other site 491916002142 ABC-ATPase subunit interface; other site 491916002143 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916002144 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 491916002145 dimer interface [polypeptide binding]; other site 491916002146 conserved gate region; other site 491916002147 putative PBP binding loops; other site 491916002148 ABC-ATPase subunit interface; other site 491916002149 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916002150 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 491916002151 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916002152 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916002153 DNA-binding site [nucleotide binding]; DNA binding site 491916002154 FCD domain; Region: FCD; pfam07729 491916002155 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916002156 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916002157 DNA binding site [nucleotide binding] 491916002158 domain linker motif; other site 491916002159 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 491916002160 dimerization interface [polypeptide binding]; other site 491916002161 ligand binding site [chemical binding]; other site 491916002162 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916002163 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 491916002164 ligand binding site [chemical binding]; other site 491916002165 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916002166 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916002167 Walker A/P-loop; other site 491916002168 ATP binding site [chemical binding]; other site 491916002169 Q-loop/lid; other site 491916002170 ABC transporter signature motif; other site 491916002171 Walker B; other site 491916002172 D-loop; other site 491916002173 H-loop/switch region; other site 491916002174 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916002175 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916002176 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 491916002177 TM-ABC transporter signature motif; other site 491916002178 Right handed beta helix region; Region: Beta_helix; pfam13229 491916002179 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 491916002180 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 491916002181 putative DNA binding site [nucleotide binding]; other site 491916002182 putative homodimer interface [polypeptide binding]; other site 491916002183 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 491916002184 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 491916002185 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 491916002186 active site 491916002187 DNA binding site [nucleotide binding] 491916002188 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 491916002189 DNA binding site [nucleotide binding] 491916002190 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 491916002191 nucleotide binding site [chemical binding]; other site 491916002192 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 491916002193 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 491916002194 putative DNA binding site [nucleotide binding]; other site 491916002195 putative homodimer interface [polypeptide binding]; other site 491916002196 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 491916002197 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 491916002198 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 491916002199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 491916002200 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916002201 EamA-like transporter family; Region: EamA; pfam00892 491916002202 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491916002203 EamA-like transporter family; Region: EamA; pfam00892 491916002204 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 491916002205 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916002206 Zn binding site [ion binding]; other site 491916002207 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 491916002208 Zn binding site [ion binding]; other site 491916002209 Predicted esterase [General function prediction only]; Region: COG0400 491916002210 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 491916002211 Response regulator receiver domain; Region: Response_reg; pfam00072 491916002212 active site 491916002213 phosphorylation site [posttranslational modification] 491916002214 intermolecular recognition site; other site 491916002215 dimerization interface [polypeptide binding]; other site 491916002216 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 491916002217 dimer interface [polypeptide binding]; other site 491916002218 phosphorylation site [posttranslational modification] 491916002219 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 491916002220 ATP binding site [chemical binding]; other site 491916002221 G-X-G motif; other site 491916002222 Response regulator receiver domain; Region: Response_reg; pfam00072 491916002223 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 491916002224 active site 491916002225 phosphorylation site [posttranslational modification] 491916002226 intermolecular recognition site; other site 491916002227 dimerization interface [polypeptide binding]; other site 491916002228 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916002229 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 491916002230 active site 491916002231 phosphorylation site [posttranslational modification] 491916002232 intermolecular recognition site; other site 491916002233 dimerization interface [polypeptide binding]; other site 491916002234 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 491916002235 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 491916002236 putative active site [active] 491916002237 heme pocket [chemical binding]; other site 491916002238 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 491916002239 dimer interface [polypeptide binding]; other site 491916002240 phosphorylation site [posttranslational modification] 491916002241 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 491916002242 ATP binding site [chemical binding]; other site 491916002243 Mg2+ binding site [ion binding]; other site 491916002244 G-X-G motif; other site 491916002245 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 491916002246 Response regulator receiver domain; Region: Response_reg; pfam00072 491916002247 active site 491916002248 phosphorylation site [posttranslational modification] 491916002249 intermolecular recognition site; other site 491916002250 dimerization interface [polypeptide binding]; other site 491916002251 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 491916002252 DNA binding residues [nucleotide binding] 491916002253 dimerization interface [polypeptide binding]; other site 491916002254 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916002255 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 491916002256 active site 491916002257 phosphorylation site [posttranslational modification] 491916002258 intermolecular recognition site; other site 491916002259 dimerization interface [polypeptide binding]; other site 491916002260 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916002261 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 491916002262 ATP binding site [chemical binding]; other site 491916002263 Mg2+ binding site [ion binding]; other site 491916002264 G-X-G motif; other site 491916002265 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 491916002266 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 491916002267 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 491916002268 Protein export membrane protein; Region: SecD_SecF; pfam02355 491916002269 putative cation:proton antiport protein; Provisional; Region: PRK10669 491916002270 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 491916002271 TrkA-N domain; Region: TrkA_N; pfam02254 491916002272 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916002273 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 491916002274 non-specific DNA binding site [nucleotide binding]; other site 491916002275 salt bridge; other site 491916002276 sequence-specific DNA binding site [nucleotide binding]; other site 491916002277 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 491916002278 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 491916002279 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 491916002280 heme-binding site [chemical binding]; other site 491916002281 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916002282 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916002283 dimer interface [polypeptide binding]; other site 491916002284 putative CheW interface [polypeptide binding]; other site 491916002285 STAS domain; Region: STAS_2; pfam13466 491916002286 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916002287 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 491916002288 active site 491916002289 phosphorylation site [posttranslational modification] 491916002290 intermolecular recognition site; other site 491916002291 dimerization interface [polypeptide binding]; other site 491916002292 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 491916002293 putative binding surface; other site 491916002294 active site 491916002295 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 491916002296 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 491916002297 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 491916002298 ATP binding site [chemical binding]; other site 491916002299 Mg2+ binding site [ion binding]; other site 491916002300 G-X-G motif; other site 491916002301 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 491916002302 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 491916002303 putative CheA interaction surface; other site 491916002304 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 491916002305 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 491916002306 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 491916002307 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 491916002308 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 491916002309 active site 491916002310 phosphorylation site [posttranslational modification] 491916002311 intermolecular recognition site; other site 491916002312 dimerization interface [polypeptide binding]; other site 491916002313 CheB methylesterase; Region: CheB_methylest; pfam01339 491916002314 Response regulator receiver domain; Region: Response_reg; pfam00072 491916002315 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 491916002316 active site 491916002317 phosphorylation site [posttranslational modification] 491916002318 intermolecular recognition site; other site 491916002319 dimerization interface [polypeptide binding]; other site 491916002320 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13497 491916002321 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 491916002322 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 491916002323 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 491916002324 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916002325 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 491916002326 DNA binding residues [nucleotide binding] 491916002327 dimerization interface [polypeptide binding]; other site 491916002328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916002329 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 491916002330 DNA binding residues [nucleotide binding] 491916002331 dimerization interface [polypeptide binding]; other site 491916002332 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 491916002333 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 491916002334 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 491916002335 MgtE intracellular N domain; Region: MgtE_N; cl15244 491916002336 FliG C-terminal domain; Region: FliG_C; pfam01706 491916002337 flagellar motor switch protein FliN; Region: fliN; TIGR02480 491916002338 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 491916002339 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 491916002340 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 491916002341 flagellar motor protein MotA; Validated; Region: PRK09110 491916002342 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 491916002343 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 491916002344 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 491916002345 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 491916002346 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 491916002347 Walker A motif; other site 491916002348 ATP binding site [chemical binding]; other site 491916002349 Walker B motif; other site 491916002350 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 491916002351 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 491916002352 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 491916002353 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 491916002354 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 491916002355 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 491916002356 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 491916002357 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 491916002358 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 491916002359 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 491916002360 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 491916002361 Uncharacterized conserved protein [Function unknown]; Region: COG3334 491916002362 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 491916002363 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 491916002364 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 491916002365 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 491916002366 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 491916002367 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 491916002368 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 491916002369 flagellin; Reviewed; Region: PRK12687 491916002370 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491916002371 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491916002372 flagellin; Reviewed; Region: PRK12687 491916002373 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491916002374 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491916002375 flagellin; Reviewed; Region: PRK12687 491916002376 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491916002377 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491916002378 flagellin; Reviewed; Region: PRK12687 491916002379 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491916002380 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491916002381 flagellar motor protein MotB; Validated; Region: motB; PRK05996 491916002382 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 491916002383 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916002384 ligand binding site [chemical binding]; other site 491916002385 chemotaxis protein; Reviewed; Region: PRK12798 491916002386 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 491916002387 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 491916002388 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 491916002389 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491916002390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916002391 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 491916002392 active site 491916002393 dimerization interface [polypeptide binding]; other site 491916002394 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 491916002395 DNA binding site [nucleotide binding] 491916002396 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 491916002397 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 491916002398 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 491916002399 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 491916002400 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 491916002401 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 491916002402 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491916002403 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491916002404 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 491916002405 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 491916002406 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 491916002407 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 491916002408 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 491916002409 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 491916002410 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 491916002411 FHIPEP family; Region: FHIPEP; pfam00771 491916002412 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 491916002413 Rod binding protein; Region: Rod-binding; pfam10135 491916002414 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 491916002415 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 491916002416 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 491916002417 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 491916002418 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 491916002419 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 491916002420 homodimer interface [polypeptide binding]; other site 491916002421 NADP binding site [chemical binding]; other site 491916002422 substrate binding site [chemical binding]; other site 491916002423 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916002424 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916002425 DNA binding site [nucleotide binding] 491916002426 domain linker motif; other site 491916002427 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 491916002428 ligand binding site [chemical binding]; other site 491916002429 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916002430 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916002431 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 491916002432 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 491916002433 conserved gate region; other site 491916002434 dimer interface [polypeptide binding]; other site 491916002435 putative PBP binding loops; other site 491916002436 ABC-ATPase subunit interface; other site 491916002437 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916002438 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 491916002439 dimer interface [polypeptide binding]; other site 491916002440 conserved gate region; other site 491916002441 putative PBP binding loops; other site 491916002442 ABC-ATPase subunit interface; other site 491916002443 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 491916002444 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 491916002445 active site 491916002446 catalytic site [active] 491916002447 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916002448 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916002449 Walker A/P-loop; other site 491916002450 ATP binding site [chemical binding]; other site 491916002451 Q-loop/lid; other site 491916002452 ABC transporter signature motif; other site 491916002453 Walker B; other site 491916002454 D-loop; other site 491916002455 H-loop/switch region; other site 491916002456 TOBE domain; Region: TOBE_2; pfam08402 491916002457 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 491916002458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916002459 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916002460 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 491916002461 putative effector binding pocket; other site 491916002462 putative dimerization interface [polypeptide binding]; other site 491916002463 phosphogluconate dehydratase; Validated; Region: PRK09054 491916002464 6-phosphogluconate dehydratase; Region: edd; TIGR01196 491916002465 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 491916002466 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 491916002467 putative active site [active] 491916002468 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 491916002469 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 491916002470 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 491916002471 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491916002472 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916002473 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 491916002474 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 491916002475 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491916002476 Predicted flavoproteins [General function prediction only]; Region: COG2081 491916002477 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916002478 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 491916002479 dimerization interface [polypeptide binding]; other site 491916002480 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916002481 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916002482 dimer interface [polypeptide binding]; other site 491916002483 putative CheW interface [polypeptide binding]; other site 491916002484 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 491916002485 dimerization interface [polypeptide binding]; other site 491916002486 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916002487 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916002488 dimer interface [polypeptide binding]; other site 491916002489 putative CheW interface [polypeptide binding]; other site 491916002490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916002491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916002492 isocitrate lyase; Provisional; Region: PRK15063 491916002493 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 491916002494 tetramer interface [polypeptide binding]; other site 491916002495 active site 491916002496 Mg2+/Mn2+ binding site [ion binding]; other site 491916002497 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 491916002498 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916002499 non-specific DNA binding site [nucleotide binding]; other site 491916002500 salt bridge; other site 491916002501 sequence-specific DNA binding site [nucleotide binding]; other site 491916002502 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 491916002503 Domain of unknown function (DUF955); Region: DUF955; pfam06114 491916002504 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 491916002505 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 491916002506 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916002507 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491916002508 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 491916002509 Walker A/P-loop; other site 491916002510 ATP binding site [chemical binding]; other site 491916002511 Q-loop/lid; other site 491916002512 ABC transporter signature motif; other site 491916002513 Walker B; other site 491916002514 D-loop; other site 491916002515 H-loop/switch region; other site 491916002516 TOBE domain; Region: TOBE_2; pfam08402 491916002517 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 491916002518 dimer interface [polypeptide binding]; other site 491916002519 conserved gate region; other site 491916002520 putative PBP binding loops; other site 491916002521 ABC-ATPase subunit interface; other site 491916002522 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916002523 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 491916002524 dimer interface [polypeptide binding]; other site 491916002525 conserved gate region; other site 491916002526 putative PBP binding loops; other site 491916002527 ABC-ATPase subunit interface; other site 491916002528 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 491916002529 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 491916002530 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 491916002531 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 491916002532 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 491916002533 acyl-activating enzyme (AAE) consensus motif; other site 491916002534 putative AMP binding site [chemical binding]; other site 491916002535 putative active site [active] 491916002536 putative CoA binding site [chemical binding]; other site 491916002537 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 491916002538 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 491916002539 putative active site [active] 491916002540 heme pocket [chemical binding]; other site 491916002541 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 491916002542 dimer interface [polypeptide binding]; other site 491916002543 phosphorylation site [posttranslational modification] 491916002544 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 491916002545 ATP binding site [chemical binding]; other site 491916002546 Mg2+ binding site [ion binding]; other site 491916002547 G-X-G motif; other site 491916002548 Phasin protein; Region: Phasin_2; cl11491 491916002549 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 491916002550 active site 491916002551 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 491916002552 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 491916002553 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 491916002554 adhesin; Provisional; Region: PRK09752 491916002555 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916002556 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916002557 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 491916002558 dimerization interface [polypeptide binding]; other site 491916002559 Uncharacterized conserved protein [Function unknown]; Region: COG1359 491916002560 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 491916002561 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 491916002562 tetrameric interface [polypeptide binding]; other site 491916002563 NAD binding site [chemical binding]; other site 491916002564 catalytic residues [active] 491916002565 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 491916002566 Rrf2 family protein; Region: rrf2_super; TIGR00738 491916002567 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916002568 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 491916002569 peptide binding site [polypeptide binding]; other site 491916002570 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916002571 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 491916002572 dimer interface [polypeptide binding]; other site 491916002573 conserved gate region; other site 491916002574 putative PBP binding loops; other site 491916002575 ABC-ATPase subunit interface; other site 491916002576 dipeptide transporter; Provisional; Region: PRK10913 491916002577 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 491916002578 dimer interface [polypeptide binding]; other site 491916002579 conserved gate region; other site 491916002580 putative PBP binding loops; other site 491916002581 ABC-ATPase subunit interface; other site 491916002582 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 491916002583 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916002584 Walker A/P-loop; other site 491916002585 ATP binding site [chemical binding]; other site 491916002586 Q-loop/lid; other site 491916002587 ABC transporter signature motif; other site 491916002588 Walker B; other site 491916002589 D-loop; other site 491916002590 H-loop/switch region; other site 491916002591 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916002592 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 491916002593 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916002594 Walker A/P-loop; other site 491916002595 ATP binding site [chemical binding]; other site 491916002596 Q-loop/lid; other site 491916002597 ABC transporter signature motif; other site 491916002598 Walker B; other site 491916002599 D-loop; other site 491916002600 H-loop/switch region; other site 491916002601 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491916002602 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 491916002603 AAA domain; Region: AAA_33; pfam13671 491916002604 ATP-binding site [chemical binding]; other site 491916002605 Gluconate-6-phosphate binding site [chemical binding]; other site 491916002606 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916002607 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491916002608 Phospholipid methyltransferase; Region: PEMT; cl17370 491916002609 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 491916002610 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 491916002611 malonyl-CoA binding site [chemical binding]; other site 491916002612 dimer interface [polypeptide binding]; other site 491916002613 active site 491916002614 product binding site; other site 491916002615 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 491916002616 TPR motif; other site 491916002617 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491916002618 binding surface 491916002619 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 491916002620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916002621 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 491916002622 DNA binding residues [nucleotide binding] 491916002623 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 491916002624 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 491916002625 putative glycosyl transferase; Provisional; Region: PRK10063 491916002626 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 491916002627 metal-binding site 491916002628 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 491916002629 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 491916002630 substrate binding site; other site 491916002631 tetramer interface; other site 491916002632 WxcM-like, C-terminal; Region: FdtA; pfam05523 491916002633 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 491916002634 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 491916002635 inhibitor-cofactor binding pocket; inhibition site 491916002636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916002637 catalytic residue [active] 491916002638 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 491916002639 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 491916002640 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 491916002641 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 491916002642 Walker A/P-loop; other site 491916002643 ATP binding site [chemical binding]; other site 491916002644 Q-loop/lid; other site 491916002645 ABC transporter signature motif; other site 491916002646 Walker B; other site 491916002647 D-loop; other site 491916002648 H-loop/switch region; other site 491916002649 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 491916002650 putative carbohydrate binding site [chemical binding]; other site 491916002651 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 491916002652 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 491916002653 NAD binding site [chemical binding]; other site 491916002654 substrate binding site [chemical binding]; other site 491916002655 active site 491916002656 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 491916002657 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 491916002658 active site 491916002659 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916002660 extended (e) SDRs; Region: SDR_e; cd08946 491916002661 NAD(P) binding site [chemical binding]; other site 491916002662 active site 491916002663 substrate binding site [chemical binding]; other site 491916002664 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 491916002665 FeS/SAM binding site; other site 491916002666 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 491916002667 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 491916002668 NeuB family; Region: NeuB; pfam03102 491916002669 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 491916002670 NeuB binding interface [polypeptide binding]; other site 491916002671 putative substrate binding site [chemical binding]; other site 491916002672 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 491916002673 ligand binding site; other site 491916002674 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 491916002675 WbqC-like protein family; Region: WbqC; pfam08889 491916002676 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 491916002677 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 491916002678 putative methyltransferase, LIC12133 family; Region: MTase_LIC12133; TIGR04325 491916002679 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 491916002680 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 491916002681 active site 491916002682 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 491916002683 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 491916002684 trimer interface [polypeptide binding]; other site 491916002685 active site 491916002686 substrate binding site [chemical binding]; other site 491916002687 CoA binding site [chemical binding]; other site 491916002688 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 491916002689 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491916002690 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 491916002691 S-adenosylmethionine binding site [chemical binding]; other site 491916002692 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 491916002693 active site 491916002694 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 491916002695 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 491916002696 NAD binding site [chemical binding]; other site 491916002697 substrate binding site [chemical binding]; other site 491916002698 homodimer interface [polypeptide binding]; other site 491916002699 active site 491916002700 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 491916002701 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 491916002702 NADP-binding site; other site 491916002703 homotetramer interface [polypeptide binding]; other site 491916002704 substrate binding site [chemical binding]; other site 491916002705 homodimer interface [polypeptide binding]; other site 491916002706 active site 491916002707 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 491916002708 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 491916002709 NADP binding site [chemical binding]; other site 491916002710 active site 491916002711 putative substrate binding site [chemical binding]; other site 491916002712 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491916002713 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 491916002714 S-adenosylmethionine binding site [chemical binding]; other site 491916002715 yich00009; insertion sequence:Integrase, catalytic core, phage 491916002716 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 491916002717 non-specific DNA binding site [nucleotide binding]; other site 491916002718 salt bridge; other site 491916002719 sequence-specific DNA binding site [nucleotide binding]; other site 491916002720 yich00010; insertion sequence:Transposase, IS66 491916002721 yich00011; insertion sequence:Transposase (), IS66 Orf2 like 491916002722 yich00012; insertion sequence:Transposase IS3/IS911 491916002723 yhch00256 491916002724 yich00013; insertion sequence:Transposase, IS66 491916002725 yich00014; insertion sequence:Transposase (), IS66 Orf2 like 491916002726 yich00015; insertion sequence:Transposase IS3/IS911 491916002727 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 491916002728 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 491916002729 HsdM N-terminal domain; Region: HsdM_N; pfam12161 491916002730 Methyltransferase domain; Region: Methyltransf_26; pfam13659 491916002731 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 491916002732 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 491916002733 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 491916002734 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 491916002735 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 491916002736 ATP binding site [chemical binding]; other site 491916002737 putative Mg++ binding site [ion binding]; other site 491916002738 Protein of unknown function DUF45; Region: DUF45; pfam01863 491916002739 Uncharacterized conserved protein [Function unknown]; Region: COG4127 491916002740 Restriction endonuclease; Region: Mrr_cat; pfam04471 491916002741 yich00016; insertion sequence:Resolvase, N-terminal 491916002742 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 491916002743 exopolyphosphatase; Region: exo_poly_only; TIGR03706 491916002744 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 491916002745 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 491916002746 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 491916002747 S-adenosylmethionine binding site [chemical binding]; other site 491916002748 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 491916002749 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 491916002750 putative transporter; Provisional; Region: PRK10504 491916002751 putative substrate translocation pore; other site 491916002752 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 491916002753 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 491916002754 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 491916002755 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 491916002756 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 491916002757 active site 491916002758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916002759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916002760 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 491916002761 putative effector binding pocket; other site 491916002762 dimerization interface [polypeptide binding]; other site 491916002763 short chain dehydrogenase; Provisional; Region: PRK06500 491916002764 classical (c) SDRs; Region: SDR_c; cd05233 491916002765 NAD(P) binding site [chemical binding]; other site 491916002766 active site 491916002767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5331 491916002768 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916002769 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916002770 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916002771 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 491916002772 dimerization interface [polypeptide binding]; other site 491916002773 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 491916002774 Uncharacterized conserved protein [Function unknown]; Region: COG5403 491916002775 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 491916002776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 491916002777 RNA methyltransferase, RsmE family; Region: TIGR00046 491916002778 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 491916002779 Phosphate transporter family; Region: PHO4; pfam01384 491916002780 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 491916002781 nudix motif; other site 491916002782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916002783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916002784 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 491916002785 putative effector binding pocket; other site 491916002786 dimerization interface [polypeptide binding]; other site 491916002787 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 491916002788 FAD binding domain; Region: FAD_binding_4; pfam01565 491916002789 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 491916002790 FAD binding domain; Region: FAD_binding_4; pfam01565 491916002791 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 491916002792 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 491916002793 Cysteine-rich domain; Region: CCG; pfam02754 491916002794 Cysteine-rich domain; Region: CCG; pfam02754 491916002795 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 491916002796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916002797 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916002798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916002799 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916002800 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 491916002801 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 491916002802 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 491916002803 motif II; other site 491916002804 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 491916002805 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916002806 active site 491916002807 catalytic tetrad [active] 491916002808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 491916002809 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 491916002810 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 491916002811 dimer interface [polypeptide binding]; other site 491916002812 motif 1; other site 491916002813 active site 491916002814 motif 2; other site 491916002815 motif 3; other site 491916002816 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 491916002817 anticodon binding site; other site 491916002818 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 491916002819 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 491916002820 motif 1; other site 491916002821 dimer interface [polypeptide binding]; other site 491916002822 active site 491916002823 motif 2; other site 491916002824 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 491916002825 motif 3; other site 491916002826 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 491916002827 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 491916002828 Predicted membrane protein [Function unknown]; Region: COG2259 491916002829 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916002830 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 491916002831 C-terminal domain interface [polypeptide binding]; other site 491916002832 GSH binding site (G-site) [chemical binding]; other site 491916002833 dimer interface [polypeptide binding]; other site 491916002834 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 491916002835 dimer interface [polypeptide binding]; other site 491916002836 N-terminal domain interface [polypeptide binding]; other site 491916002837 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 491916002838 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 491916002839 ring oligomerisation interface [polypeptide binding]; other site 491916002840 ATP/Mg binding site [chemical binding]; other site 491916002841 stacking interactions; other site 491916002842 hinge regions; other site 491916002843 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 491916002844 oligomerisation interface [polypeptide binding]; other site 491916002845 mobile loop; other site 491916002846 roof hairpin; other site 491916002847 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 491916002848 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 491916002849 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 491916002850 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 491916002851 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 491916002852 active site 491916002853 Riboflavin kinase; Region: Flavokinase; smart00904 491916002854 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 491916002855 oligomeric interface; other site 491916002856 putative active site [active] 491916002857 homodimer interface [polypeptide binding]; other site 491916002858 prevent-host-death family protein; Region: phd_fam; TIGR01552 491916002859 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 491916002860 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491916002861 active site 491916002862 HIGH motif; other site 491916002863 nucleotide binding site [chemical binding]; other site 491916002864 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 491916002865 active site 491916002866 KMSKS motif; other site 491916002867 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 491916002868 tRNA binding surface [nucleotide binding]; other site 491916002869 anticodon binding site; other site 491916002870 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 491916002871 nucleoside/Zn binding site; other site 491916002872 dimer interface [polypeptide binding]; other site 491916002873 catalytic motif [active] 491916002874 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 491916002875 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 491916002876 RNA binding surface [nucleotide binding]; other site 491916002877 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 491916002878 active site 491916002879 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 491916002880 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 491916002881 S-adenosylmethionine binding site [chemical binding]; other site 491916002882 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 491916002883 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 491916002884 nucleophile elbow; other site 491916002885 hypothetical protein; Provisional; Region: PRK02268 491916002886 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916002887 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 491916002888 putative dimer interface [polypeptide binding]; other site 491916002889 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 491916002890 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 491916002891 TrkA-N domain; Region: TrkA_N; pfam02254 491916002892 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 491916002893 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 491916002894 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916002895 active site 491916002896 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 491916002897 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 491916002898 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 491916002899 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 491916002900 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 491916002901 motif II; other site 491916002902 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 491916002903 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 491916002904 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 491916002905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 491916002906 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 491916002907 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 491916002908 ATP binding site [chemical binding]; other site 491916002909 Mg2+ binding site [ion binding]; other site 491916002910 G-X-G motif; other site 491916002911 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 491916002912 ATP binding site [chemical binding]; other site 491916002913 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 491916002914 PAS fold; Region: PAS_7; pfam12860 491916002915 PAS fold; Region: PAS_4; pfam08448 491916002916 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 491916002917 putative active site [active] 491916002918 heme pocket [chemical binding]; other site 491916002919 Response regulator receiver domain; Region: Response_reg; pfam00072 491916002920 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 491916002921 active site 491916002922 phosphorylation site [posttranslational modification] 491916002923 intermolecular recognition site; other site 491916002924 dimerization interface [polypeptide binding]; other site 491916002925 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916002926 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916002927 metal binding site [ion binding]; metal-binding site 491916002928 active site 491916002929 I-site; other site 491916002930 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 491916002931 PRC-barrel domain; Region: PRC; pfam05239 491916002932 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 491916002933 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 491916002934 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 491916002935 active site 491916002936 intersubunit interface [polypeptide binding]; other site 491916002937 catalytic residue [active] 491916002938 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 491916002939 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 491916002940 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916002941 classical (c) SDRs; Region: SDR_c; cd05233 491916002942 NAD(P) binding site [chemical binding]; other site 491916002943 active site 491916002944 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491916002945 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 491916002946 Bacterial transcriptional regulator; Region: IclR; pfam01614 491916002947 Autoinducer binding domain; Region: Autoind_bind; pfam03472 491916002948 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 491916002949 DNA binding residues [nucleotide binding] 491916002950 dimerization interface [polypeptide binding]; other site 491916002951 Domain of unknown function DUF59; Region: DUF59; pfam01883 491916002952 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 491916002953 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 491916002954 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 491916002955 Cl binding site [ion binding]; other site 491916002956 oligomer interface [polypeptide binding]; other site 491916002957 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 491916002958 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 491916002959 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 491916002960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 491916002961 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 491916002962 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 491916002963 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 491916002964 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 491916002965 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 491916002966 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 491916002967 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 491916002968 RNA/DNA hybrid binding site [nucleotide binding]; other site 491916002969 active site 491916002970 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 491916002971 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 491916002972 FeS/SAM binding site; other site 491916002973 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 491916002974 MPT binding site; other site 491916002975 trimer interface [polypeptide binding]; other site 491916002976 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 491916002977 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 491916002978 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 491916002979 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 491916002980 TPR motif; other site 491916002981 binding surface 491916002982 TPR repeat; Region: TPR_11; pfam13414 491916002983 TPR repeat; Region: TPR_11; pfam13414 491916002984 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 491916002985 binding surface 491916002986 TPR motif; other site 491916002987 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491916002988 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 491916002989 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491916002990 substrate binding pocket [chemical binding]; other site 491916002991 chain length determination region; other site 491916002992 substrate-Mg2+ binding site; other site 491916002993 catalytic residues [active] 491916002994 aspartate-rich region 1; other site 491916002995 active site lid residues [active] 491916002996 aspartate-rich region 2; other site 491916002997 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 491916002998 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 491916002999 Methyltransferase domain; Region: Methyltransf_26; pfam13659 491916003000 manganese transport protein MntH; Reviewed; Region: PRK00701 491916003001 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 491916003002 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 491916003003 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 491916003004 tandem repeat interface [polypeptide binding]; other site 491916003005 oligomer interface [polypeptide binding]; other site 491916003006 active site residues [active] 491916003007 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 491916003008 dimer interface [polypeptide binding]; other site 491916003009 motif 1; other site 491916003010 active site 491916003011 motif 2; other site 491916003012 motif 3; other site 491916003013 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 491916003014 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 491916003015 active site 491916003016 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 491916003017 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 491916003018 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 491916003019 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 491916003020 hinge; other site 491916003021 active site 491916003022 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 491916003023 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 491916003024 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 491916003025 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 491916003026 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 491916003027 Uncharacterized conserved protein [Function unknown]; Region: COG1683 491916003028 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 491916003029 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 491916003030 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 491916003031 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 491916003032 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 491916003033 RNA binding site [nucleotide binding]; other site 491916003034 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 491916003035 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 491916003036 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 491916003037 S-adenosylmethionine binding site [chemical binding]; other site 491916003038 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 491916003039 catalytic core [active] 491916003040 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 491916003041 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 491916003042 UbiA prenyltransferase family; Region: UbiA; pfam01040 491916003043 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003044 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003045 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003046 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003047 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003048 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003049 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003050 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003051 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916003052 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 491916003053 FAD binding domain; Region: FAD_binding_4; pfam01565 491916003054 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 491916003055 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 491916003056 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 491916003057 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 491916003058 [2Fe-2S] cluster binding site [ion binding]; other site 491916003059 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 491916003060 putative alpha subunit interface [polypeptide binding]; other site 491916003061 putative active site [active] 491916003062 putative substrate binding site [chemical binding]; other site 491916003063 Fe binding site [ion binding]; other site 491916003064 BA14K-like protein; Region: BA14K; pfam07886 491916003065 Protein of unknown function (DUF982); Region: DUF982; pfam06169 491916003066 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 491916003067 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 491916003068 Cl binding site [ion binding]; other site 491916003069 oligomer interface [polypeptide binding]; other site 491916003070 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 491916003071 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491916003072 active site 491916003073 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 491916003074 enoyl-CoA hydratase; Provisional; Region: PRK06688 491916003075 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 491916003076 substrate binding site [chemical binding]; other site 491916003077 oxyanion hole (OAH) forming residues; other site 491916003078 trimer interface [polypeptide binding]; other site 491916003079 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 491916003080 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 491916003081 short chain dehydrogenase; Provisional; Region: PRK06179 491916003082 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 491916003083 NADP binding site [chemical binding]; other site 491916003084 active site 491916003085 steroid binding site; other site 491916003086 Predicted transcriptional regulators [Transcription]; Region: COG1733 491916003087 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491916003088 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 491916003089 TRAM domain; Region: TRAM; cl01282 491916003090 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 491916003091 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 491916003092 RNA binding surface [nucleotide binding]; other site 491916003093 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 491916003094 S-adenosylmethionine binding site [chemical binding]; other site 491916003095 CHASE3 domain; Region: CHASE3; cl05000 491916003096 HAMP domain; Region: HAMP; pfam00672 491916003097 dimerization interface [polypeptide binding]; other site 491916003098 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916003099 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916003100 dimer interface [polypeptide binding]; other site 491916003101 putative CheW interface [polypeptide binding]; other site 491916003102 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 491916003103 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 491916003104 TPP-binding site; other site 491916003105 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 491916003106 PYR/PP interface [polypeptide binding]; other site 491916003107 dimer interface [polypeptide binding]; other site 491916003108 TPP binding site [chemical binding]; other site 491916003109 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491916003110 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 491916003111 PLD-like domain; Region: PLDc_2; pfam13091 491916003112 putative active site [active] 491916003113 catalytic site [active] 491916003114 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 491916003115 PLD-like domain; Region: PLDc_2; pfam13091 491916003116 putative active site [active] 491916003117 catalytic site [active] 491916003118 Pirin-related protein [General function prediction only]; Region: COG1741 491916003119 Pirin; Region: Pirin; pfam02678 491916003120 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 491916003121 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 491916003122 classical (c) SDRs; Region: SDR_c; cd05233 491916003123 NAD(P) binding site [chemical binding]; other site 491916003124 active site 491916003125 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 491916003126 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 491916003127 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 491916003128 putative active site [active] 491916003129 Zn binding site [ion binding]; other site 491916003130 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 491916003131 active site 2 [active] 491916003132 active site 1 [active] 491916003133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916003134 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916003135 DNA-binding site [nucleotide binding]; DNA binding site 491916003136 FCD domain; Region: FCD; pfam07729 491916003137 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 491916003138 malonyl-CoA synthase; Validated; Region: PRK07514 491916003139 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 491916003140 acyl-activating enzyme (AAE) consensus motif; other site 491916003141 active site 491916003142 AMP binding site [chemical binding]; other site 491916003143 CoA binding site [chemical binding]; other site 491916003144 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 491916003145 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 491916003146 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 491916003147 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916003148 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 491916003149 DNA binding residues [nucleotide binding] 491916003150 dimerization interface [polypeptide binding]; other site 491916003151 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916003152 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 491916003153 dimer interface [polypeptide binding]; other site 491916003154 phosphorylation site [posttranslational modification] 491916003155 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 491916003156 ATP binding site [chemical binding]; other site 491916003157 Mg2+ binding site [ion binding]; other site 491916003158 G-X-G motif; other site 491916003159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916003160 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 491916003161 active site 491916003162 phosphorylation site [posttranslational modification] 491916003163 intermolecular recognition site; other site 491916003164 dimerization interface [polypeptide binding]; other site 491916003165 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 491916003166 DNA binding site [nucleotide binding] 491916003167 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; cl00859 491916003168 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 491916003169 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 491916003170 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 491916003171 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916003172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916003173 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 491916003174 dimerization interface [polypeptide binding]; other site 491916003175 BioY family; Region: BioY; pfam02632 491916003176 Cobalt transport protein; Region: CbiQ; cl00463 491916003177 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 491916003178 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 491916003179 Walker A/P-loop; other site 491916003180 ATP binding site [chemical binding]; other site 491916003181 Q-loop/lid; other site 491916003182 ABC transporter signature motif; other site 491916003183 Walker B; other site 491916003184 D-loop; other site 491916003185 H-loop/switch region; other site 491916003186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 491916003187 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 491916003188 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 491916003189 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 491916003190 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 491916003191 dimerization interface [polypeptide binding]; other site 491916003192 active site 491916003193 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 491916003194 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 491916003195 Tetramer interface [polypeptide binding]; other site 491916003196 active site 491916003197 FMN-binding site [chemical binding]; other site 491916003198 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 491916003199 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 491916003200 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 491916003201 catalytic core [active] 491916003202 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 491916003203 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 491916003204 NAD binding site [chemical binding]; other site 491916003205 homotetramer interface [polypeptide binding]; other site 491916003206 homodimer interface [polypeptide binding]; other site 491916003207 substrate binding site [chemical binding]; other site 491916003208 active site 491916003209 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 491916003210 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 491916003211 HSP70 interaction site [polypeptide binding]; other site 491916003212 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 491916003213 dimer interface [polypeptide binding]; other site 491916003214 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 491916003215 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 491916003216 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 491916003217 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 491916003218 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 491916003219 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 491916003220 putative active site [active] 491916003221 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 491916003222 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491916003223 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 491916003224 metal binding site [ion binding]; metal-binding site 491916003225 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 491916003226 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 491916003227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916003228 Coenzyme A binding pocket [chemical binding]; other site 491916003229 protease TldD; Provisional; Region: tldD; PRK10735 491916003230 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 491916003231 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 491916003232 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 491916003233 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 491916003234 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 491916003235 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 491916003236 Subunit I/III interface [polypeptide binding]; other site 491916003237 D-pathway; other site 491916003238 Subunit I/VIIc interface [polypeptide binding]; other site 491916003239 Subunit I/IV interface [polypeptide binding]; other site 491916003240 Subunit I/II interface [polypeptide binding]; other site 491916003241 Low-spin heme (heme a) binding site [chemical binding]; other site 491916003242 Subunit I/VIIa interface [polypeptide binding]; other site 491916003243 Subunit I/VIa interface [polypeptide binding]; other site 491916003244 Dimer interface; other site 491916003245 Putative water exit pathway; other site 491916003246 Binuclear center (heme a3/CuB) [ion binding]; other site 491916003247 K-pathway; other site 491916003248 Subunit I/Vb interface [polypeptide binding]; other site 491916003249 Putative proton exit pathway; other site 491916003250 Subunit I/VIb interface; other site 491916003251 Subunit I/VIc interface [polypeptide binding]; other site 491916003252 Electron transfer pathway; other site 491916003253 Subunit I/VIIIb interface [polypeptide binding]; other site 491916003254 Subunit I/VIIb interface [polypeptide binding]; other site 491916003255 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 491916003256 UbiA prenyltransferase family; Region: UbiA; pfam01040 491916003257 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 491916003258 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 491916003259 Subunit III/VIIa interface [polypeptide binding]; other site 491916003260 Phospholipid binding site [chemical binding]; other site 491916003261 Subunit I/III interface [polypeptide binding]; other site 491916003262 Subunit III/VIb interface [polypeptide binding]; other site 491916003263 Subunit III/VIa interface; other site 491916003264 Subunit III/Vb interface [polypeptide binding]; other site 491916003265 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cl17391 491916003266 P-loop motif; other site 491916003267 ATP binding site [chemical binding]; other site 491916003268 Chloramphenicol (Cm) binding site [chemical binding]; other site 491916003269 catalytic residue [active] 491916003270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 491916003271 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 491916003272 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 491916003273 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 491916003274 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 491916003275 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 491916003276 putative active site [active] 491916003277 putative substrate binding site [chemical binding]; other site 491916003278 ATP binding site [chemical binding]; other site 491916003279 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 491916003280 RNA/DNA hybrid binding site [nucleotide binding]; other site 491916003281 active site 491916003282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 491916003283 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 491916003284 CsbD-like; Region: CsbD; pfam05532 491916003285 hypothetical protein; Validated; Region: PRK00228 491916003286 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 491916003287 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 491916003288 catalytic triad [active] 491916003289 dimer interface [polypeptide binding]; other site 491916003290 ThiC-associated domain; Region: ThiC-associated; pfam13667 491916003291 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 491916003292 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 491916003293 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 491916003294 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 491916003295 ABC-ATPase subunit interface; other site 491916003296 dimer interface [polypeptide binding]; other site 491916003297 putative PBP binding regions; other site 491916003298 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 491916003299 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 491916003300 metal binding site [ion binding]; metal-binding site 491916003301 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 491916003302 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 491916003303 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 491916003304 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 491916003305 PAS fold; Region: PAS_3; pfam08447 491916003306 putative active site [active] 491916003307 heme pocket [chemical binding]; other site 491916003308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916003309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916003310 metal binding site [ion binding]; metal-binding site 491916003311 active site 491916003312 I-site; other site 491916003313 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 491916003314 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491916003315 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491916003316 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 491916003317 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 491916003318 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491916003319 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 491916003320 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 491916003321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916003322 catalytic residue [active] 491916003323 tRNA sulfurtransferase ThiI; Region: TIGR00342 491916003324 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 491916003325 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 491916003326 motif II; other site 491916003327 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 491916003328 putative DNA binding site [nucleotide binding]; other site 491916003329 NIPSNAP; Region: NIPSNAP; pfam07978 491916003330 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 491916003331 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 491916003332 DNA methylase; Region: N6_N4_Mtase; pfam01555 491916003333 SnoaL-like domain; Region: SnoaL_2; pfam12680 491916003334 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 491916003335 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 491916003336 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 491916003337 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 491916003338 minor groove reading motif; other site 491916003339 helix-hairpin-helix signature motif; other site 491916003340 substrate binding pocket [chemical binding]; other site 491916003341 active site 491916003342 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 491916003343 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 491916003344 DNA binding and oxoG recognition site [nucleotide binding] 491916003345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 491916003346 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 491916003347 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 491916003348 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 491916003349 catalytic residues [active] 491916003350 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 491916003351 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 491916003352 Walker A/P-loop; other site 491916003353 ATP binding site [chemical binding]; other site 491916003354 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 491916003355 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 491916003356 ABC transporter signature motif; other site 491916003357 Walker B; other site 491916003358 D-loop; other site 491916003359 H-loop/switch region; other site 491916003360 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 491916003361 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 491916003362 putative C-terminal domain interface [polypeptide binding]; other site 491916003363 putative GSH binding site (G-site) [chemical binding]; other site 491916003364 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916003365 putative dimer interface [polypeptide binding]; other site 491916003366 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 491916003367 N-terminal domain interface [polypeptide binding]; other site 491916003368 substrate binding pocket (H-site) [chemical binding]; other site 491916003369 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 491916003370 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 491916003371 active site 491916003372 pyruvate phosphate dikinase; Provisional; Region: PRK09279 491916003373 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 491916003374 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 491916003375 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 491916003376 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 491916003377 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 491916003378 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 491916003379 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 491916003380 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 491916003381 ATP binding site [chemical binding]; other site 491916003382 putative Mg++ binding site [ion binding]; other site 491916003383 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 491916003384 nucleotide binding region [chemical binding]; other site 491916003385 ATP-binding site [chemical binding]; other site 491916003386 DNA methylase; Region: N6_N4_Mtase; pfam01555 491916003387 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 491916003388 ypch00366 491916003389 daunorubicin C-13 ketoreductase (KR), classical (c)-like SDRs; Region: DR_C-13_KR_SDR_c_like; cd08951 491916003390 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 491916003391 putative NAD(P) binding site [chemical binding]; other site 491916003392 active site 491916003393 WHG domain; Region: WHG; pfam13305 491916003394 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 491916003395 yiaA/B two helix domain; Region: YiaAB; cl01759 491916003396 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 491916003397 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491916003398 putative acyl-acceptor binding pocket; other site 491916003399 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 491916003400 acyl-activating enzyme (AAE) consensus motif; other site 491916003401 putative AMP binding site [chemical binding]; other site 491916003402 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 491916003403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916003404 putative substrate translocation pore; other site 491916003405 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 491916003406 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 491916003407 NAD binding site [chemical binding]; other site 491916003408 Protein of unknown function (DUF982); Region: DUF982; pfam06169 491916003409 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 491916003410 Catalytic site [active] 491916003411 Transcription elongation factor Spt4; Region: Spt4; cl12033 491916003412 Zn binding site [ion binding]; other site 491916003413 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 491916003414 ypch00371 491916003415 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 491916003416 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 491916003417 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916003418 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 491916003419 transmembrane helices; other site 491916003420 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 491916003421 TrkA-C domain; Region: TrkA_C; pfam02080 491916003422 TrkA-C domain; Region: TrkA_C; pfam02080 491916003423 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 491916003424 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 491916003425 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 491916003426 Sulfate transporter family; Region: Sulfate_transp; pfam00916 491916003427 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 491916003428 active site clefts [active] 491916003429 zinc binding site [ion binding]; other site 491916003430 dimer interface [polypeptide binding]; other site 491916003431 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916003432 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 491916003433 S-adenosylmethionine binding site [chemical binding]; other site 491916003434 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 491916003435 Beta-lactamase; Region: Beta-lactamase; pfam00144 491916003436 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491916003437 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; cl17904 491916003438 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 491916003439 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 491916003440 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 491916003441 active site 491916003442 DNA binding site [nucleotide binding] 491916003443 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 491916003444 DNA binding site [nucleotide binding] 491916003445 NIPSNAP; Region: NIPSNAP; pfam07978 491916003446 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491916003447 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 491916003448 putative substrate translocation pore; other site 491916003449 Cupin; Region: Cupin_6; pfam12852 491916003450 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916003451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916003452 SnoaL-like domain; Region: SnoaL_4; pfam13577 491916003453 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 491916003454 Cytochrome c; Region: Cytochrom_C; cl11414 491916003455 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 491916003456 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491916003457 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 491916003458 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 491916003459 Predicted membrane protein [Function unknown]; Region: COG2261 491916003460 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 491916003461 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916003462 cyclase homology domain; Region: CHD; cd07302 491916003463 nucleotidyl binding site; other site 491916003464 metal binding site [ion binding]; metal-binding site 491916003465 dimer interface [polypeptide binding]; other site 491916003466 TPR repeat; Region: TPR_11; pfam13414 491916003467 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 491916003468 binding surface 491916003469 TPR motif; other site 491916003470 TPR repeat; Region: TPR_11; pfam13414 491916003471 TPR repeat; Region: TPR_11; pfam13414 491916003472 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 491916003473 binding surface 491916003474 TPR motif; other site 491916003475 TPR repeat; Region: TPR_11; pfam13414 491916003476 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 491916003477 dimerization interface [polypeptide binding]; other site 491916003478 putative DNA binding site [nucleotide binding]; other site 491916003479 putative Zn2+ binding site [ion binding]; other site 491916003480 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 491916003481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916003482 NAD(P) binding site [chemical binding]; other site 491916003483 active site 491916003484 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 491916003485 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491916003486 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491916003487 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 491916003488 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916003489 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 491916003490 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 491916003491 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 491916003492 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491916003493 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491916003494 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 491916003495 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916003496 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 491916003497 catalytic residues [active] 491916003498 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 491916003499 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916003500 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 491916003501 protein binding site [polypeptide binding]; other site 491916003502 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 491916003503 protein binding site [polypeptide binding]; other site 491916003504 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916003505 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916003506 DNA binding site [nucleotide binding] 491916003507 domain linker motif; other site 491916003508 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 491916003509 putative ligand binding site [chemical binding]; other site 491916003510 putative dimerization interface [polypeptide binding]; other site 491916003511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916003512 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 491916003513 putative effector binding pocket; other site 491916003514 dimerization interface [polypeptide binding]; other site 491916003515 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 491916003516 NmrA-like family; Region: NmrA; pfam05368 491916003517 NADP binding site [chemical binding]; other site 491916003518 active site 491916003519 regulatory binding site [polypeptide binding]; other site 491916003520 Transglycosylase; Region: Transgly; pfam00912 491916003521 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 491916003522 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 491916003523 BA14K-like protein; Region: BA14K; pfam07886 491916003524 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 491916003525 putative catalytic residues [active] 491916003526 GYD domain; Region: GYD; cl01743 491916003527 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 491916003528 active site 1 [active] 491916003529 dimer interface [polypeptide binding]; other site 491916003530 hexamer interface [polypeptide binding]; other site 491916003531 active site 2 [active] 491916003532 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 491916003533 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916003534 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916003535 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 491916003536 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 491916003537 CysD dimerization site [polypeptide binding]; other site 491916003538 G1 box; other site 491916003539 putative GEF interaction site [polypeptide binding]; other site 491916003540 GTP/Mg2+ binding site [chemical binding]; other site 491916003541 Switch I region; other site 491916003542 G2 box; other site 491916003543 G3 box; other site 491916003544 Switch II region; other site 491916003545 G4 box; other site 491916003546 G5 box; other site 491916003547 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 491916003548 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 491916003549 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 491916003550 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 491916003551 Active Sites [active] 491916003552 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 491916003553 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 491916003554 Active Sites [active] 491916003555 Predicted transcriptional regulator [Transcription]; Region: COG1959 491916003556 Transcriptional regulator; Region: Rrf2; pfam02082 491916003557 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 491916003558 choline dehydrogenase; Validated; Region: PRK02106 491916003559 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491916003560 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491916003561 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 491916003562 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 491916003563 tetrameric interface [polypeptide binding]; other site 491916003564 NAD binding site [chemical binding]; other site 491916003565 catalytic residues [active] 491916003566 transcriptional regulator BetI; Validated; Region: PRK00767 491916003567 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916003568 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 491916003569 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 491916003570 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 491916003571 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 491916003572 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 491916003573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916003574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916003575 metal binding site [ion binding]; metal-binding site 491916003576 active site 491916003577 I-site; other site 491916003578 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 491916003579 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 491916003580 NAD(P) binding site [chemical binding]; other site 491916003581 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916003582 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 491916003583 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 491916003584 putative substrate translocation pore; other site 491916003585 MarR family; Region: MarR_2; pfam12802 491916003586 Predicted transcriptional regulator [Transcription]; Region: COG2345 491916003587 sugar efflux transporter; Region: 2A0120; TIGR00899 491916003588 L-asparaginase II; Region: Asparaginase_II; cl01842 491916003589 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491916003590 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 491916003591 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491916003592 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916003593 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 491916003594 C-terminal domain interface [polypeptide binding]; other site 491916003595 GSH binding site (G-site) [chemical binding]; other site 491916003596 dimer interface [polypeptide binding]; other site 491916003597 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 491916003598 dimer interface [polypeptide binding]; other site 491916003599 N-terminal domain interface [polypeptide binding]; other site 491916003600 substrate binding pocket (H-site) [chemical binding]; other site 491916003601 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 491916003602 oligomeric interface; other site 491916003603 putative active site [active] 491916003604 homodimer interface [polypeptide binding]; other site 491916003605 prevent-host-death family protein; Region: phd_fam; TIGR01552 491916003606 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 491916003607 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916003608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916003609 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 491916003610 dimerization interface [polypeptide binding]; other site 491916003611 substrate binding pocket [chemical binding]; other site 491916003612 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916003613 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 491916003614 putative C-terminal domain interface [polypeptide binding]; other site 491916003615 putative GSH binding site (G-site) [chemical binding]; other site 491916003616 putative dimer interface [polypeptide binding]; other site 491916003617 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 491916003618 dimer interface [polypeptide binding]; other site 491916003619 N-terminal domain interface [polypeptide binding]; other site 491916003620 putative substrate binding pocket (H-site) [chemical binding]; other site 491916003621 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 491916003622 substrate binding site [chemical binding]; other site 491916003623 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 491916003624 PAS fold; Region: PAS_4; pfam08448 491916003625 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 491916003626 putative active site [active] 491916003627 heme pocket [chemical binding]; other site 491916003628 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 491916003629 GAF domain; Region: GAF; pfam01590 491916003630 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916003631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916003632 metal binding site [ion binding]; metal-binding site 491916003633 active site 491916003634 I-site; other site 491916003635 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 491916003636 Autoinducer binding domain; Region: Autoind_bind; pfam03472 491916003637 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916003638 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 491916003639 DNA binding residues [nucleotide binding] 491916003640 dimerization interface [polypeptide binding]; other site 491916003641 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 491916003642 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916003643 putative active site [active] 491916003644 heme pocket [chemical binding]; other site 491916003645 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 491916003646 putative active site [active] 491916003647 heme pocket [chemical binding]; other site 491916003648 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916003649 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916003650 dimer interface [polypeptide binding]; other site 491916003651 putative CheW interface [polypeptide binding]; other site 491916003652 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial homologs of mammalian glycerophosphodiester phosphodiesterase GDE4; Region: GDPD_GDE4_like_1; cd08613 491916003653 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 491916003654 putative active site [active] 491916003655 catalytic site [active] 491916003656 putative metal binding site [ion binding]; other site 491916003657 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916003658 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916003659 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 491916003660 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 491916003661 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 491916003662 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 491916003663 active site 491916003664 DNA binding site [nucleotide binding] 491916003665 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 491916003666 DNA binding site [nucleotide binding] 491916003667 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 491916003668 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491916003669 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 491916003670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916003671 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916003672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916003673 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916003674 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 491916003675 DNA-binding site [nucleotide binding]; DNA binding site 491916003676 RNA-binding motif; other site 491916003677 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 491916003678 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916003679 MarR family; Region: MarR; pfam01047 491916003680 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 491916003681 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916003682 MarR family; Region: MarR_2; pfam12802 491916003683 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 491916003684 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 491916003685 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916003686 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 491916003687 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916003688 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 491916003689 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491916003690 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916003691 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916003692 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491916003693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916003694 Walker A/P-loop; other site 491916003695 ATP binding site [chemical binding]; other site 491916003696 Q-loop/lid; other site 491916003697 ABC transporter signature motif; other site 491916003698 Walker B; other site 491916003699 D-loop; other site 491916003700 H-loop/switch region; other site 491916003701 ABC transporter; Region: ABC_tran_2; pfam12848 491916003702 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916003703 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 491916003704 non-specific DNA binding site [nucleotide binding]; other site 491916003705 salt bridge; other site 491916003706 sequence-specific DNA binding site [nucleotide binding]; other site 491916003707 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 491916003708 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; cl00447 491916003709 nudix motif; other site 491916003710 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 491916003711 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 491916003712 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 491916003713 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 491916003714 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 491916003715 S-adenosylmethionine binding site [chemical binding]; other site 491916003716 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 491916003717 Domain of unknown function DUF21; Region: DUF21; pfam01595 491916003718 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 491916003719 Transporter associated domain; Region: CorC_HlyC; smart01091 491916003720 Cupin domain; Region: Cupin_2; pfam07883 491916003721 Isochorismatase family; Region: Isochorismatase; pfam00857 491916003722 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 491916003723 catalytic triad [active] 491916003724 conserved cis-peptide bond; other site 491916003725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916003726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916003727 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 491916003728 dimerization interface [polypeptide binding]; other site 491916003729 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 491916003730 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 491916003731 putative NAD(P) binding site [chemical binding]; other site 491916003732 catalytic Zn binding site [ion binding]; other site 491916003733 structural Zn binding site [ion binding]; other site 491916003734 aminotransferase; Provisional; Region: PRK13356 491916003735 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 491916003736 homodimer interface [polypeptide binding]; other site 491916003737 substrate-cofactor binding pocket; other site 491916003738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916003739 catalytic residue [active] 491916003740 transcriptional regulator; Provisional; Region: PRK10632 491916003741 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916003742 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 491916003743 putative effector binding pocket; other site 491916003744 dimerization interface [polypeptide binding]; other site 491916003745 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 491916003746 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916003747 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916003748 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491916003749 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 491916003750 putative substrate translocation pore; other site 491916003751 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 491916003752 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916003753 cyclase homology domain; Region: CHD; cd07302 491916003754 nucleotidyl binding site; other site 491916003755 metal binding site [ion binding]; metal-binding site 491916003756 dimer interface [polypeptide binding]; other site 491916003757 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 491916003758 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 491916003759 homodimer interface [polypeptide binding]; other site 491916003760 NAD binding pocket [chemical binding]; other site 491916003761 ATP binding pocket [chemical binding]; other site 491916003762 Mg binding site [ion binding]; other site 491916003763 active-site loop [active] 491916003764 glutathionine S-transferase; Provisional; Region: PRK10542 491916003765 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 491916003766 GSH binding site (G-site) [chemical binding]; other site 491916003767 C-terminal domain interface [polypeptide binding]; other site 491916003768 dimer interface [polypeptide binding]; other site 491916003769 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 491916003770 dimer interface [polypeptide binding]; other site 491916003771 N-terminal domain interface [polypeptide binding]; other site 491916003772 substrate binding pocket (H-site) [chemical binding]; other site 491916003773 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916003774 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916003775 drug efflux system protein MdtG; Provisional; Region: PRK09874 491916003776 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 491916003777 putative substrate translocation pore; other site 491916003778 SnoaL-like domain; Region: SnoaL_2; pfam12680 491916003779 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491916003780 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 491916003781 S-adenosylmethionine binding site [chemical binding]; other site 491916003782 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 491916003783 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 491916003784 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 491916003785 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 491916003786 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 491916003787 active site 491916003788 metal binding site [ion binding]; metal-binding site 491916003789 Predicted transcriptional regulator [Transcription]; Region: COG2378 491916003790 HTH domain; Region: HTH_11; pfam08279 491916003791 WYL domain; Region: WYL; pfam13280 491916003792 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916003793 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 491916003794 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 491916003795 NADH(P)-binding; Region: NAD_binding_10; pfam13460 491916003796 NAD binding site [chemical binding]; other site 491916003797 substrate binding site [chemical binding]; other site 491916003798 putative active site [active] 491916003799 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 491916003800 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 491916003801 catalytic residues [active] 491916003802 transcriptional regulator; Provisional; Region: PRK10632 491916003803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916003804 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 491916003805 putative effector binding pocket; other site 491916003806 dimerization interface [polypeptide binding]; other site 491916003807 Cytochrome C' Region: Cytochrom_C_2; cl01610 491916003808 Cytochrome c; Region: Cytochrom_C; pfam00034 491916003809 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 491916003810 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916003811 Coenzyme A binding pocket [chemical binding]; other site 491916003812 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 491916003813 putative metal binding site [ion binding]; other site 491916003814 putative homodimer interface [polypeptide binding]; other site 491916003815 putative homotetramer interface [polypeptide binding]; other site 491916003816 putative homodimer-homodimer interface [polypeptide binding]; other site 491916003817 putative allosteric switch controlling residues; other site 491916003818 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 491916003819 beta-lactamase TEM; Provisional; Region: PRK15442 491916003820 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 491916003821 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 491916003822 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 491916003823 Trp docking motif [polypeptide binding]; other site 491916003824 putative active site [active] 491916003825 hypothetical protein; Validated; Region: PRK00029 491916003826 Uncharacterized conserved protein [Function unknown]; Region: COG0397 491916003827 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 491916003828 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916003829 putative substrate translocation pore; other site 491916003830 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 491916003831 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 491916003832 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491916003833 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 491916003834 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 491916003835 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 491916003836 NodB motif; other site 491916003837 putative active site [active] 491916003838 putative catalytic site [active] 491916003839 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491916003840 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916003841 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491916003842 Domain of unknown function DUF20; Region: UPF0118; pfam01594 491916003843 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 491916003844 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 491916003845 putative metal binding site [ion binding]; other site 491916003846 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 491916003847 active site 491916003848 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 491916003849 Ligand Binding Site [chemical binding]; other site 491916003850 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 491916003851 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 491916003852 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491916003853 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916003854 Coenzyme A binding pocket [chemical binding]; other site 491916003855 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 491916003856 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 491916003857 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 491916003858 Usg-like family; Region: Usg; cl11567 491916003859 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 491916003860 oligomerisation interface [polypeptide binding]; other site 491916003861 mobile loop; other site 491916003862 roof hairpin; other site 491916003863 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 491916003864 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 491916003865 ring oligomerisation interface [polypeptide binding]; other site 491916003866 ATP/Mg binding site [chemical binding]; other site 491916003867 stacking interactions; other site 491916003868 hinge regions; other site 491916003869 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 491916003870 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916003871 putative ADP-binding pocket [chemical binding]; other site 491916003872 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 491916003873 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 491916003874 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 491916003875 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 491916003876 putative dimer interface [polypeptide binding]; other site 491916003877 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 491916003878 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 491916003879 putative dimer interface [polypeptide binding]; other site 491916003880 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 491916003881 SPW repeat; Region: SPW; pfam03779 491916003882 Protein of unknown function (DUF982); Region: DUF982; pfam06169 491916003883 methionine sulfoxide reductase B; Provisional; Region: PRK00222 491916003884 SelR domain; Region: SelR; pfam01641 491916003885 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 491916003886 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916003887 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 491916003888 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 491916003889 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 491916003890 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 491916003891 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916003892 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 491916003893 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 491916003894 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 491916003895 Predicted transcriptional regulator [Transcription]; Region: COG4957 491916003896 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 491916003897 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916003898 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 491916003899 dimer interface [polypeptide binding]; other site 491916003900 phosphorylation site [posttranslational modification] 491916003901 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 491916003902 ATP binding site [chemical binding]; other site 491916003903 Mg2+ binding site [ion binding]; other site 491916003904 G-X-G motif; other site 491916003905 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 491916003906 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916003907 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916003908 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916003909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916003910 dimer interface [polypeptide binding]; other site 491916003911 putative CheW interface [polypeptide binding]; other site 491916003912 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 491916003913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 491916003914 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 491916003915 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 491916003916 Predicted integral membrane protein [Function unknown]; Region: COG5436 491916003917 Uncharacterized conserved protein [Function unknown]; Region: COG5402 491916003918 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 491916003919 Transglycosylase; Region: Transgly; pfam00912 491916003920 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491916003921 hypothetical protein; Provisional; Region: PRK05170 491916003922 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916003923 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916003924 ypch00462 491916003925 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 491916003926 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 491916003927 putative di-iron ligands [ion binding]; other site 491916003928 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 491916003929 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 491916003930 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916003931 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 491916003932 protein binding site [polypeptide binding]; other site 491916003933 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 491916003934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916003935 DNA-binding site [nucleotide binding]; DNA binding site 491916003936 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 491916003937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916003938 homodimer interface [polypeptide binding]; other site 491916003939 catalytic residue [active] 491916003940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 491916003941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916003942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916003943 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 491916003944 putative effector binding pocket; other site 491916003945 putative dimerization interface [polypeptide binding]; other site 491916003946 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916003947 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 491916003948 putative C-terminal domain interface [polypeptide binding]; other site 491916003949 putative GSH binding site (G-site) [chemical binding]; other site 491916003950 putative dimer interface [polypeptide binding]; other site 491916003951 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 491916003952 putative N-terminal domain interface [polypeptide binding]; other site 491916003953 putative dimer interface [polypeptide binding]; other site 491916003954 putative substrate binding pocket (H-site) [chemical binding]; other site 491916003955 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 491916003956 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 491916003957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 491916003958 SnoaL-like domain; Region: SnoaL_2; pfam12680 491916003959 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916003960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916003961 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 491916003962 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 491916003963 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916003964 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916003965 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 491916003966 active site 491916003967 phosphorylation site [posttranslational modification] 491916003968 intermolecular recognition site; other site 491916003969 dimerization interface [polypeptide binding]; other site 491916003970 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 491916003971 DNA binding site [nucleotide binding] 491916003972 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916003973 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 491916003974 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 491916003975 ATP binding site [chemical binding]; other site 491916003976 Mg2+ binding site [ion binding]; other site 491916003977 G-X-G motif; other site 491916003978 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 491916003979 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 491916003980 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 491916003981 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 491916003982 TPR motif; other site 491916003983 binding surface 491916003984 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 491916003985 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 491916003986 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 491916003987 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 491916003988 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916003989 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 491916003990 protein binding site [polypeptide binding]; other site 491916003991 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 491916003992 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916003993 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 491916003994 active site 491916003995 phosphorylation site [posttranslational modification] 491916003996 intermolecular recognition site; other site 491916003997 dimerization interface [polypeptide binding]; other site 491916003998 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 491916003999 DNA binding site [nucleotide binding] 491916004000 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916004001 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 491916004002 dimerization interface [polypeptide binding]; other site 491916004003 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 491916004004 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 491916004005 ATP binding site [chemical binding]; other site 491916004006 Mg2+ binding site [ion binding]; other site 491916004007 G-X-G motif; other site 491916004008 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 491916004009 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 491916004010 metal binding triad; other site 491916004011 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 491916004012 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 491916004013 metal binding triad; other site 491916004014 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 491916004015 PAS fold; Region: PAS_3; pfam08447 491916004016 putative active site [active] 491916004017 heme pocket [chemical binding]; other site 491916004018 PAS fold; Region: PAS_7; pfam12860 491916004019 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916004020 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 491916004021 dimer interface [polypeptide binding]; other site 491916004022 phosphorylation site [posttranslational modification] 491916004023 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 491916004024 ATP binding site [chemical binding]; other site 491916004025 Mg2+ binding site [ion binding]; other site 491916004026 G-X-G motif; other site 491916004027 aminopeptidase N; Provisional; Region: pepN; PRK14015 491916004028 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 491916004029 active site 491916004030 Zn binding site [ion binding]; other site 491916004031 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916004032 EamA-like transporter family; Region: EamA; pfam00892 491916004033 EamA-like transporter family; Region: EamA; pfam00892 491916004034 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 491916004035 Fe-S cluster binding site [ion binding]; other site 491916004036 active site 491916004037 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 491916004038 putative chaperone; Provisional; Region: PRK11678 491916004039 nucleotide binding site [chemical binding]; other site 491916004040 putative NEF/HSP70 interaction site [polypeptide binding]; other site 491916004041 SBD interface [polypeptide binding]; other site 491916004042 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491916004043 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916004044 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916004045 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916004046 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 491916004047 active site 491916004048 ATP binding site [chemical binding]; other site 491916004049 Phosphotransferase enzyme family; Region: APH; pfam01636 491916004050 short chain dehydrogenase; Provisional; Region: PRK08339 491916004051 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 491916004052 putative NAD(P) binding site [chemical binding]; other site 491916004053 putative active site [active] 491916004054 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 491916004055 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916004056 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 491916004057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916004058 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916004059 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916004060 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 491916004061 dimerization interface [polypeptide binding]; other site 491916004062 putative DNA binding site [nucleotide binding]; other site 491916004063 putative Zn2+ binding site [ion binding]; other site 491916004064 AsnC family; Region: AsnC_trans_reg; pfam01037 491916004065 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 491916004066 MgtE intracellular N domain; Region: MgtE_N; pfam03448 491916004067 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 491916004068 Divalent cation transporter; Region: MgtE; pfam01769 491916004069 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491916004070 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 491916004071 putative substrate translocation pore; other site 491916004072 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 491916004073 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 491916004074 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 491916004075 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491916004076 putative aminotransferase; Validated; Region: PRK07480 491916004077 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 491916004078 inhibitor-cofactor binding pocket; inhibition site 491916004079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916004080 catalytic residue [active] 491916004081 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 491916004082 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 491916004083 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 491916004084 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 491916004085 Ligand binding site; other site 491916004086 Putative Catalytic site; other site 491916004087 DXD motif; other site 491916004088 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 491916004089 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 491916004090 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 491916004091 DNA binding residues [nucleotide binding] 491916004092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 491916004093 YCII-related domain; Region: YCII; cl00999 491916004094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 491916004095 AMP nucleosidase; Provisional; Region: PRK08292 491916004096 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 491916004097 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 491916004098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 491916004099 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 491916004100 Sel1 repeat; Region: Sel1; cl02723 491916004101 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 491916004102 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 491916004103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916004104 homodimer interface [polypeptide binding]; other site 491916004105 catalytic residue [active] 491916004106 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 491916004107 Protein required for attachment to host cells; Region: Host_attach; pfam10116 491916004108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916004109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916004110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916004111 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 491916004112 putative efflux protein, MATE family; Region: matE; TIGR00797 491916004113 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 491916004114 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916004115 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 491916004116 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491916004117 PYR/PP interface [polypeptide binding]; other site 491916004118 dimer interface [polypeptide binding]; other site 491916004119 TPP binding site [chemical binding]; other site 491916004120 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491916004121 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 491916004122 TPP-binding site; other site 491916004123 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916004124 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 491916004125 substrate binding site [chemical binding]; other site 491916004126 ATP binding site [chemical binding]; other site 491916004127 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 491916004128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 491916004129 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 491916004130 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 491916004131 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 491916004132 putative active site [active] 491916004133 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916004134 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916004135 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916004136 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 491916004137 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916004138 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916004139 Porin subfamily; Region: Porin_2; pfam02530 491916004140 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916004141 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 491916004142 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 491916004143 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491916004144 catalytic residue [active] 491916004145 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916004146 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 491916004147 dimer interface [polypeptide binding]; other site 491916004148 active site 491916004149 catalytic residue [active] 491916004150 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 491916004151 SmpB-tmRNA interface; other site 491916004152 Uncharacterized conserved protein [Function unknown]; Region: COG1432 491916004153 LabA_like proteins; Region: LabA; cd10911 491916004154 putative metal binding site [ion binding]; other site 491916004155 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 491916004156 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 491916004157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491916004158 Zn2+ binding site [ion binding]; other site 491916004159 Mg2+ binding site [ion binding]; other site 491916004160 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491916004161 synthetase active site [active] 491916004162 NTP binding site [chemical binding]; other site 491916004163 metal binding site [ion binding]; metal-binding site 491916004164 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 491916004165 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 491916004166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 491916004167 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 491916004168 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 491916004169 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 491916004170 Catalytic site [active] 491916004171 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 491916004172 ribonuclease III; Reviewed; Region: PRK12371 491916004173 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 491916004174 dimerization interface [polypeptide binding]; other site 491916004175 active site 491916004176 metal binding site [ion binding]; metal-binding site 491916004177 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 491916004178 dsRNA binding site [nucleotide binding]; other site 491916004179 GTPase Era; Reviewed; Region: era; PRK00089 491916004180 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 491916004181 G1 box; other site 491916004182 GTP/Mg2+ binding site [chemical binding]; other site 491916004183 Switch I region; other site 491916004184 G2 box; other site 491916004185 Switch II region; other site 491916004186 G3 box; other site 491916004187 G4 box; other site 491916004188 G5 box; other site 491916004189 KH domain; Region: KH_2; pfam07650 491916004190 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916004191 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 491916004192 ligand binding site [chemical binding]; other site 491916004193 flexible hinge region; other site 491916004194 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 491916004195 putative switch regulator; other site 491916004196 non-specific DNA interactions [nucleotide binding]; other site 491916004197 DNA binding site [nucleotide binding] 491916004198 sequence specific DNA binding site [nucleotide binding]; other site 491916004199 putative cAMP binding site [chemical binding]; other site 491916004200 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916004201 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 491916004202 active site 491916004203 phosphorylation site [posttranslational modification] 491916004204 intermolecular recognition site; other site 491916004205 dimerization interface [polypeptide binding]; other site 491916004206 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 491916004207 Recombination protein O N terminal; Region: RecO_N; pfam11967 491916004208 Recombination protein O C terminal; Region: RecO_C; pfam02565 491916004209 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 491916004210 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916004211 active site 491916004212 catalytic tetrad [active] 491916004213 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 491916004214 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 491916004215 MOSC domain; Region: MOSC; pfam03473 491916004216 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 491916004217 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 491916004218 PAS domain; Region: PAS; smart00091 491916004219 PAS fold; Region: PAS_7; pfam12860 491916004220 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916004221 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916004222 metal binding site [ion binding]; metal-binding site 491916004223 active site 491916004224 I-site; other site 491916004225 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 491916004226 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 491916004227 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 491916004228 E-class dimer interface [polypeptide binding]; other site 491916004229 P-class dimer interface [polypeptide binding]; other site 491916004230 active site 491916004231 Cu2+ binding site [ion binding]; other site 491916004232 Zn2+ binding site [ion binding]; other site 491916004233 Conserved TM helix; Region: TM_helix; pfam05552 491916004234 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491916004235 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 491916004236 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 491916004237 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 491916004238 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 491916004239 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491916004240 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 491916004241 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 491916004242 nudix motif; other site 491916004243 Uncharacterized conserved protein [Function unknown]; Region: COG1742 491916004244 Uncharacterized conserved protein [Function unknown]; Region: COG2135 491916004245 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 491916004246 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 491916004247 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 491916004248 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 491916004249 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916004250 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 491916004251 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 491916004252 Walker A/P-loop; other site 491916004253 ATP binding site [chemical binding]; other site 491916004254 Q-loop/lid; other site 491916004255 ABC transporter signature motif; other site 491916004256 Walker B; other site 491916004257 D-loop; other site 491916004258 H-loop/switch region; other site 491916004259 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 491916004260 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 491916004261 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491916004262 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 491916004263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916004264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916004265 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_2; cd08464 491916004266 putative substrate binding pocket [chemical binding]; other site 491916004267 putative dimerization interface [polypeptide binding]; other site 491916004268 ypch00507 491916004269 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916004270 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916004271 Predicted permeases [General function prediction only]; Region: RarD; COG2962 491916004272 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 491916004273 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 491916004274 active site 491916004275 catalytic residues [active] 491916004276 metal binding site [ion binding]; metal-binding site 491916004277 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 491916004278 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 491916004279 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916004280 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916004281 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916004282 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 491916004283 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 491916004284 active site 491916004285 HIGH motif; other site 491916004286 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 491916004287 KMSKS motif; other site 491916004288 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 491916004289 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 491916004290 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 491916004291 active site 491916004292 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916004293 classical (c) SDRs; Region: SDR_c; cd05233 491916004294 NAD(P) binding site [chemical binding]; other site 491916004295 active site 491916004296 amidophosphoribosyltransferase; Provisional; Region: PRK09123 491916004297 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 491916004298 active site 491916004299 tetramer interface [polypeptide binding]; other site 491916004300 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916004301 active site 491916004302 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 491916004303 Colicin V production protein; Region: Colicin_V; pfam02674 491916004304 DNA repair protein RadA; Provisional; Region: PRK11823 491916004305 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 491916004306 Walker A motif; other site 491916004307 ATP binding site [chemical binding]; other site 491916004308 Walker B motif; other site 491916004309 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 491916004310 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916004311 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 491916004312 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 491916004313 dimer interface [polypeptide binding]; other site 491916004314 active site 491916004315 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491916004316 substrate binding site [chemical binding]; other site 491916004317 catalytic residues [active] 491916004318 replicative DNA helicase; Provisional; Region: PRK09165 491916004319 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 491916004320 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 491916004321 Walker A motif; other site 491916004322 ATP binding site [chemical binding]; other site 491916004323 Walker B motif; other site 491916004324 DNA binding loops [nucleotide binding] 491916004325 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 491916004326 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 491916004327 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 491916004328 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 491916004329 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 491916004330 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 491916004331 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916004332 active site 491916004333 catalytic tetrad [active] 491916004334 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 491916004335 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 491916004336 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 491916004337 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 491916004338 NAD(P) binding site [chemical binding]; other site 491916004339 homotetramer interface [polypeptide binding]; other site 491916004340 homodimer interface [polypeptide binding]; other site 491916004341 active site 491916004342 acyl carrier protein; Provisional; Region: acpP; PRK00982 491916004343 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 491916004344 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 491916004345 dimer interface [polypeptide binding]; other site 491916004346 active site 491916004347 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 491916004348 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 491916004349 dimerization interface [polypeptide binding]; other site 491916004350 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 491916004351 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 491916004352 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 491916004353 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 491916004354 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 491916004355 catalytic site [active] 491916004356 G-X2-G-X-G-K; other site 491916004357 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 491916004358 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 491916004359 S-adenosylmethionine binding site [chemical binding]; other site 491916004360 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 491916004361 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 491916004362 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 491916004363 SurA N-terminal domain; Region: SurA_N; pfam09312 491916004364 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 491916004365 Organic solvent tolerance protein; Region: OstA_C; pfam04453 491916004366 Predicted permeases [General function prediction only]; Region: COG0795 491916004367 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 491916004368 Predicted permeases [General function prediction only]; Region: COG0795 491916004369 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 491916004370 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 491916004371 active site 491916004372 multifunctional aminopeptidase A; Provisional; Region: PRK00913 491916004373 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 491916004374 interface (dimer of trimers) [polypeptide binding]; other site 491916004375 Substrate-binding/catalytic site; other site 491916004376 Zn-binding sites [ion binding]; other site 491916004377 DNA polymerase III subunit chi; Validated; Region: PRK05728 491916004378 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916004379 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916004380 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 491916004381 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491916004382 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 491916004383 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 491916004384 active site 491916004385 non-prolyl cis peptide bond; other site 491916004386 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 491916004387 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916004388 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916004389 Walker A/P-loop; other site 491916004390 ATP binding site [chemical binding]; other site 491916004391 Q-loop/lid; other site 491916004392 ABC transporter signature motif; other site 491916004393 Walker B; other site 491916004394 D-loop; other site 491916004395 H-loop/switch region; other site 491916004396 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916004397 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 491916004398 dimer interface [polypeptide binding]; other site 491916004399 conserved gate region; other site 491916004400 putative PBP binding loops; other site 491916004401 ABC-ATPase subunit interface; other site 491916004402 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916004403 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 491916004404 dimer interface [polypeptide binding]; other site 491916004405 conserved gate region; other site 491916004406 putative PBP binding loops; other site 491916004407 ABC-ATPase subunit interface; other site 491916004408 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 491916004409 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916004410 substrate binding pocket [chemical binding]; other site 491916004411 membrane-bound complex binding site; other site 491916004412 hinge residues; other site 491916004413 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916004414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916004415 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 491916004416 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 491916004417 NodB motif; other site 491916004418 active site 491916004419 catalytic site [active] 491916004420 metal binding site [ion binding]; metal-binding site 491916004421 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491916004422 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916004423 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916004424 ABC transporter; Region: ABC_tran_2; pfam12848 491916004425 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916004426 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916004427 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916004428 metal binding site [ion binding]; metal-binding site 491916004429 active site 491916004430 I-site; other site 491916004431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 491916004432 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916004433 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491916004434 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 491916004435 putative N-terminal domain interface [polypeptide binding]; other site 491916004436 putative dimer interface [polypeptide binding]; other site 491916004437 putative substrate binding pocket (H-site) [chemical binding]; other site 491916004438 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 491916004439 active site 491916004440 multimer interface [polypeptide binding]; other site 491916004441 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 491916004442 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 491916004443 CGNR zinc finger; Region: zf-CGNR; pfam11706 491916004444 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 491916004445 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916004446 TM-ABC transporter signature motif; other site 491916004447 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 491916004448 MoaE homodimer interface [polypeptide binding]; other site 491916004449 MoaD interaction [polypeptide binding]; other site 491916004450 active site residues [active] 491916004451 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 491916004452 MoaE interaction surface [polypeptide binding]; other site 491916004453 MoeB interaction surface [polypeptide binding]; other site 491916004454 thiocarboxylated glycine; other site 491916004455 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 491916004456 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 491916004457 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 491916004458 GIY-YIG motif/motif A; other site 491916004459 active site 491916004460 catalytic site [active] 491916004461 putative DNA binding site [nucleotide binding]; other site 491916004462 metal binding site [ion binding]; metal-binding site 491916004463 UvrB/uvrC motif; Region: UVR; pfam02151 491916004464 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 491916004465 short chain dehydrogenase; Provisional; Region: PRK09134 491916004466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916004467 NAD(P) binding site [chemical binding]; other site 491916004468 active site 491916004469 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 491916004470 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916004471 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 491916004472 putative C-terminal domain interface [polypeptide binding]; other site 491916004473 putative GSH binding site (G-site) [chemical binding]; other site 491916004474 putative dimer interface [polypeptide binding]; other site 491916004475 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 491916004476 dimer interface [polypeptide binding]; other site 491916004477 N-terminal domain interface [polypeptide binding]; other site 491916004478 putative substrate binding pocket (H-site) [chemical binding]; other site 491916004479 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 491916004480 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 491916004481 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 491916004482 putative [4Fe-4S] binding site [ion binding]; other site 491916004483 putative molybdopterin cofactor binding site [chemical binding]; other site 491916004484 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 491916004485 putative molybdopterin cofactor binding site; other site 491916004486 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 491916004487 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 491916004488 dimer interface [polypeptide binding]; other site 491916004489 ADP-ribose binding site [chemical binding]; other site 491916004490 active site 491916004491 nudix motif; other site 491916004492 metal binding site [ion binding]; metal-binding site 491916004493 phosphonate metabolism protein PhnM; Region: phosphono_phnM; TIGR02318 491916004494 Amidohydrolase; Region: Amidohydro_5; pfam13594 491916004495 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 491916004496 active site 491916004497 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 491916004498 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 491916004499 active site 491916004500 substrate binding site [chemical binding]; other site 491916004501 cosubstrate binding site; other site 491916004502 catalytic site [active] 491916004503 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 491916004504 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 491916004505 dimerization interface [polypeptide binding]; other site 491916004506 putative ATP binding site [chemical binding]; other site 491916004507 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491916004508 Domain of unknown function DUF20; Region: UPF0118; pfam01594 491916004509 hypothetical protein; Validated; Region: PRK09087 491916004510 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 491916004511 polyphosphate kinase; Provisional; Region: PRK05443 491916004512 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 491916004513 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 491916004514 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 491916004515 putative domain interface [polypeptide binding]; other site 491916004516 putative active site [active] 491916004517 catalytic site [active] 491916004518 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 491916004519 putative domain interface [polypeptide binding]; other site 491916004520 putative active site [active] 491916004521 catalytic site [active] 491916004522 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 491916004523 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 491916004524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 491916004525 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916004526 cyclase homology domain; Region: CHD; cd07302 491916004527 nucleotidyl binding site; other site 491916004528 metal binding site [ion binding]; metal-binding site 491916004529 dimer interface [polypeptide binding]; other site 491916004530 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 491916004531 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 491916004532 catalytic site [active] 491916004533 putative active site [active] 491916004534 putative substrate binding site [chemical binding]; other site 491916004535 HRDC domain; Region: HRDC; pfam00570 491916004536 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 491916004537 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 491916004538 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 491916004539 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 491916004540 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 491916004541 dimer interface [polypeptide binding]; other site 491916004542 anticodon binding site; other site 491916004543 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 491916004544 homodimer interface [polypeptide binding]; other site 491916004545 motif 1; other site 491916004546 active site 491916004547 motif 2; other site 491916004548 GAD domain; Region: GAD; pfam02938 491916004549 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 491916004550 active site 491916004551 motif 3; other site 491916004552 yich00017; insertion sequence:transposase 491916004553 yich00018; insertion sequence:Integrase, catalytic core 491916004554 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 491916004555 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 491916004556 CAP-like domain; other site 491916004557 active site 491916004558 primary dimer interface [polypeptide binding]; other site 491916004559 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 491916004560 putative hydrophobic ligand binding site [chemical binding]; other site 491916004561 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 491916004562 putative addiction module antidote; Region: doc_partner; TIGR02609 491916004563 EamA-like transporter family; Region: EamA; cl17759 491916004564 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 491916004565 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 491916004566 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 491916004567 Predicted membrane protein/domain [Function unknown]; Region: COG1714 491916004568 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 491916004569 dimer interface [polypeptide binding]; other site 491916004570 allosteric magnesium binding site [ion binding]; other site 491916004571 active site 491916004572 aspartate-rich active site metal binding site; other site 491916004573 Schiff base residues; other site 491916004574 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916004575 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 491916004576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 491916004577 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916004578 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916004579 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 491916004580 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 491916004581 dimer interface [polypeptide binding]; other site 491916004582 active site 491916004583 glycine-pyridoxal phosphate binding site [chemical binding]; other site 491916004584 folate binding site [chemical binding]; other site 491916004585 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 491916004586 ATP cone domain; Region: ATP-cone; pfam03477 491916004587 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 491916004588 catalytic motif [active] 491916004589 Zn binding site [ion binding]; other site 491916004590 RibD C-terminal domain; Region: RibD_C; cl17279 491916004591 RibD C-terminal domain; Region: RibD_C; cl17279 491916004592 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 491916004593 Lumazine binding domain; Region: Lum_binding; pfam00677 491916004594 Lumazine binding domain; Region: Lum_binding; pfam00677 491916004595 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 491916004596 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 491916004597 substrate binding site; other site 491916004598 tetramer interface; other site 491916004599 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 491916004600 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 491916004601 NADP binding site [chemical binding]; other site 491916004602 active site 491916004603 putative substrate binding site [chemical binding]; other site 491916004604 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 491916004605 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 491916004606 NAD binding site [chemical binding]; other site 491916004607 substrate binding site [chemical binding]; other site 491916004608 homodimer interface [polypeptide binding]; other site 491916004609 active site 491916004610 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 491916004611 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 491916004612 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 491916004613 inhibitor-cofactor binding pocket; inhibition site 491916004614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916004615 catalytic residue [active] 491916004616 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916004617 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916004618 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916004619 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 491916004620 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 491916004621 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 491916004622 active site 491916004623 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 491916004624 Radical SAM superfamily; Region: Radical_SAM; pfam04055 491916004625 FeS/SAM binding site; other site 491916004626 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491916004627 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 491916004628 active site 491916004629 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491916004630 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916004631 Cupin domain; Region: Cupin_2; cl17218 491916004632 Fringe-like; Region: Fringe; pfam02434 491916004633 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 491916004634 homopentamer interface [polypeptide binding]; other site 491916004635 active site 491916004636 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 491916004637 putative RNA binding site [nucleotide binding]; other site 491916004638 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 491916004639 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 491916004640 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 491916004641 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 491916004642 Uncharacterized conserved protein [Function unknown]; Region: COG5452 491916004643 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 491916004644 putative phosphate acyltransferase; Provisional; Region: PRK05331 491916004645 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 491916004646 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 491916004647 dimer interface [polypeptide binding]; other site 491916004648 active site 491916004649 CoA binding pocket [chemical binding]; other site 491916004650 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 491916004651 IHF dimer interface [polypeptide binding]; other site 491916004652 IHF - DNA interface [nucleotide binding]; other site 491916004653 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 491916004654 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 491916004655 DNA binding residues [nucleotide binding] 491916004656 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 491916004657 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 491916004658 dimer interface [polypeptide binding]; other site 491916004659 phosphorylation site [posttranslational modification] 491916004660 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 491916004661 ATP binding site [chemical binding]; other site 491916004662 Mg2+ binding site [ion binding]; other site 491916004663 G-X-G motif; other site 491916004664 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916004665 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 491916004666 active site 491916004667 phosphorylation site [posttranslational modification] 491916004668 intermolecular recognition site; other site 491916004669 dimerization interface [polypeptide binding]; other site 491916004670 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 491916004671 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 491916004672 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 491916004673 DXD motif; other site 491916004674 PilZ domain; Region: PilZ; pfam07238 491916004675 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 491916004676 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 491916004677 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 491916004678 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 491916004679 motif I; other site 491916004680 active site 491916004681 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916004682 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 491916004683 S-adenosylmethionine binding site [chemical binding]; other site 491916004684 Helix-turn-helix; Region: HTH_3; pfam01381 491916004685 non-specific DNA binding site [nucleotide binding]; other site 491916004686 salt bridge; other site 491916004687 sequence-specific DNA binding site [nucleotide binding]; other site 491916004688 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 491916004689 non-specific DNA interactions [nucleotide binding]; other site 491916004690 DNA binding site [nucleotide binding] 491916004691 sequence specific DNA binding site [nucleotide binding]; other site 491916004692 putative cAMP binding site [chemical binding]; other site 491916004693 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916004694 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491916004695 nucleotide binding site [chemical binding]; other site 491916004696 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 491916004697 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916004698 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916004699 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916004700 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916004701 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916004702 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 491916004703 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 491916004704 dimer interface [polypeptide binding]; other site 491916004705 conserved gate region; other site 491916004706 putative PBP binding loops; other site 491916004707 ABC-ATPase subunit interface; other site 491916004708 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916004709 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 491916004710 dimer interface [polypeptide binding]; other site 491916004711 conserved gate region; other site 491916004712 putative PBP binding loops; other site 491916004713 ABC-ATPase subunit interface; other site 491916004714 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 491916004715 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 491916004716 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 491916004717 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 491916004718 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916004719 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 491916004720 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 491916004721 SLBB domain; Region: SLBB; pfam10531 491916004722 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 491916004723 Chain length determinant protein; Region: Wzz; pfam02706 491916004724 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 491916004725 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 491916004726 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 491916004727 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 491916004728 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 491916004729 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 491916004730 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491916004731 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 491916004732 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 491916004733 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 491916004734 agmatinase; Region: agmatinase; TIGR01230 491916004735 oligomer interface [polypeptide binding]; other site 491916004736 putative active site [active] 491916004737 Mn binding site [ion binding]; other site 491916004738 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 491916004739 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 491916004740 23S rRNA interface [nucleotide binding]; other site 491916004741 L3 interface [polypeptide binding]; other site 491916004742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916004743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916004744 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 491916004745 dimerization interface [polypeptide binding]; other site 491916004746 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 491916004747 enoyl-CoA hydratase; Validated; Region: PRK08139 491916004748 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 491916004749 substrate binding site [chemical binding]; other site 491916004750 oxyanion hole (OAH) forming residues; other site 491916004751 trimer interface [polypeptide binding]; other site 491916004752 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 491916004753 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 491916004754 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 491916004755 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 491916004756 homodimer interface [polypeptide binding]; other site 491916004757 substrate-cofactor binding pocket; other site 491916004758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916004759 catalytic residue [active] 491916004760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916004761 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916004762 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 491916004763 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916004764 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 491916004765 active site 491916004766 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 491916004767 Acyltransferase family; Region: Acyl_transf_3; pfam01757 491916004768 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 491916004769 CHASE4 domain; Region: CHASE4; pfam05228 491916004770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916004771 metal binding site [ion binding]; metal-binding site 491916004772 active site 491916004773 I-site; other site 491916004774 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 491916004775 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 491916004776 Cytochrome P450; Region: p450; cl12078 491916004777 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916004778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916004779 metal binding site [ion binding]; metal-binding site 491916004780 active site 491916004781 I-site; other site 491916004782 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 491916004783 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 491916004784 oligomer interface [polypeptide binding]; other site 491916004785 active site residues [active] 491916004786 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 491916004787 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 491916004788 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 491916004789 Walker A motif; other site 491916004790 ATP binding site [chemical binding]; other site 491916004791 Walker B motif; other site 491916004792 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 491916004793 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 491916004794 Found in ATP-dependent protease La (LON); Region: LON; smart00464 491916004795 Found in ATP-dependent protease La (LON); Region: LON; smart00464 491916004796 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 491916004797 Walker A motif; other site 491916004798 ATP binding site [chemical binding]; other site 491916004799 Walker B motif; other site 491916004800 arginine finger; other site 491916004801 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 491916004802 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 491916004803 IHF dimer interface [polypeptide binding]; other site 491916004804 IHF - DNA interface [nucleotide binding]; other site 491916004805 EamA-like transporter family; Region: EamA; pfam00892 491916004806 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 491916004807 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 491916004808 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916004809 active site 491916004810 catalytic tetrad [active] 491916004811 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491916004812 Methyltransferase domain; Region: Methyltransf_24; pfam13578 491916004813 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 491916004814 catalytic residues [active] 491916004815 dimer interface [polypeptide binding]; other site 491916004816 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 491916004817 NADH dehydrogenase subunit B; Validated; Region: PRK06411 491916004818 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 491916004819 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 491916004820 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 491916004821 NADH dehydrogenase subunit D; Validated; Region: PRK06075 491916004822 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 491916004823 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 491916004824 putative dimer interface [polypeptide binding]; other site 491916004825 [2Fe-2S] cluster binding site [ion binding]; other site 491916004826 Uncharacterized conserved protein [Function unknown]; Region: COG3743 491916004827 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 491916004828 SLBB domain; Region: SLBB; pfam10531 491916004829 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 491916004830 Uncharacterized conserved protein [Function unknown]; Region: COG3743 491916004831 NADH dehydrogenase subunit G; Validated; Region: PRK09130 491916004832 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 491916004833 catalytic loop [active] 491916004834 iron binding site [ion binding]; other site 491916004835 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 491916004836 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 491916004837 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 491916004838 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 491916004839 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 491916004840 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 491916004841 4Fe-4S binding domain; Region: Fer4; pfam00037 491916004842 4Fe-4S binding domain; Region: Fer4; pfam00037 491916004843 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 491916004844 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 491916004845 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 491916004846 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 491916004847 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 491916004848 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 491916004849 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916004850 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 491916004851 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 491916004852 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916004853 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 491916004854 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916004855 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 491916004856 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 491916004857 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 491916004858 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 491916004859 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491916004860 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 491916004861 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916004862 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 491916004863 dimer interface [polypeptide binding]; other site 491916004864 substrate binding site [chemical binding]; other site 491916004865 metal binding site [ion binding]; metal-binding site 491916004866 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 491916004867 prolyl-tRNA synthetase; Provisional; Region: PRK12325 491916004868 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 491916004869 dimer interface [polypeptide binding]; other site 491916004870 motif 1; other site 491916004871 active site 491916004872 motif 2; other site 491916004873 motif 3; other site 491916004874 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 491916004875 anticodon binding site; other site 491916004876 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 491916004877 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491916004878 FtsX-like permease family; Region: FtsX; pfam02687 491916004879 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491916004880 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491916004881 Walker A/P-loop; other site 491916004882 ATP binding site [chemical binding]; other site 491916004883 Q-loop/lid; other site 491916004884 ABC transporter signature motif; other site 491916004885 Walker B; other site 491916004886 D-loop; other site 491916004887 H-loop/switch region; other site 491916004888 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 491916004889 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 491916004890 putative active site [active] 491916004891 putative PHP Thumb interface [polypeptide binding]; other site 491916004892 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 491916004893 generic binding surface II; other site 491916004894 generic binding surface I; other site 491916004895 hypothetical protein; Provisional; Region: PRK06132 491916004896 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916004897 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 491916004898 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916004899 DNA polymerase IV; Provisional; Region: PRK02794 491916004900 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 491916004901 active site 491916004902 DNA binding site [nucleotide binding] 491916004903 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916004904 Coenzyme A binding pocket [chemical binding]; other site 491916004905 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 491916004906 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916004907 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 491916004908 active site 491916004909 phosphorylation site [posttranslational modification] 491916004910 intermolecular recognition site; other site 491916004911 dimerization interface [polypeptide binding]; other site 491916004912 response regulator PleD; Reviewed; Region: pleD; PRK09581 491916004913 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 491916004914 active site 491916004915 phosphorylation site [posttranslational modification] 491916004916 intermolecular recognition site; other site 491916004917 dimerization interface [polypeptide binding]; other site 491916004918 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 491916004919 active site 491916004920 phosphorylation site [posttranslational modification] 491916004921 intermolecular recognition site; other site 491916004922 dimerization interface [polypeptide binding]; other site 491916004923 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916004924 metal binding site [ion binding]; metal-binding site 491916004925 active site 491916004926 I-site; other site 491916004927 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 491916004928 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 491916004929 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916004930 putative substrate translocation pore; other site 491916004931 hypothetical protein; Provisional; Region: PRK05978 491916004932 ribonuclease R; Region: RNase_R; TIGR02063 491916004933 RNB domain; Region: RNB; pfam00773 491916004934 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 491916004935 RNA binding site [nucleotide binding]; other site 491916004936 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 491916004937 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 491916004938 active site 491916004939 interdomain interaction site; other site 491916004940 putative metal-binding site [ion binding]; other site 491916004941 nucleotide binding site [chemical binding]; other site 491916004942 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 491916004943 domain I; other site 491916004944 DNA binding groove [nucleotide binding] 491916004945 phosphate binding site [ion binding]; other site 491916004946 domain II; other site 491916004947 domain III; other site 491916004948 nucleotide binding site [chemical binding]; other site 491916004949 catalytic site [active] 491916004950 domain IV; other site 491916004951 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 491916004952 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 491916004953 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 491916004954 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 491916004955 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 491916004956 DNA protecting protein DprA; Region: dprA; TIGR00732 491916004957 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 491916004958 dihydroorotase; Validated; Region: PRK09059 491916004959 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 491916004960 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 491916004961 active site 491916004962 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 491916004963 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491916004964 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 491916004965 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491916004966 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 491916004967 active site 491916004968 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 491916004969 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 491916004970 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 491916004971 AMIN domain; Region: AMIN; pfam11741 491916004972 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 491916004973 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 491916004974 active site 491916004975 metal binding site [ion binding]; metal-binding site 491916004976 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 491916004977 Transglycosylase; Region: Transgly; pfam00912 491916004978 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491916004979 peptide chain release factor 2; Provisional; Region: PRK07342 491916004980 This domain is found in peptide chain release factors; Region: PCRF; smart00937 491916004981 RF-1 domain; Region: RF-1; pfam00472 491916004982 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 491916004983 ATP-NAD kinase; Region: NAD_kinase; pfam01513 491916004984 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 491916004985 Protease inhibitor Inh; Region: Inh; pfam02974 491916004986 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 491916004987 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 491916004988 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 491916004989 elongation factor Tu; Reviewed; Region: PRK00049 491916004990 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 491916004991 G1 box; other site 491916004992 GEF interaction site [polypeptide binding]; other site 491916004993 GTP/Mg2+ binding site [chemical binding]; other site 491916004994 Switch I region; other site 491916004995 G2 box; other site 491916004996 G3 box; other site 491916004997 Switch II region; other site 491916004998 G4 box; other site 491916004999 G5 box; other site 491916005000 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 491916005001 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 491916005002 Antibiotic Binding Site [chemical binding]; other site 491916005003 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916005004 extended (e) SDRs; Region: SDR_e; cd08946 491916005005 NAD(P) binding site [chemical binding]; other site 491916005006 active site 491916005007 substrate binding site [chemical binding]; other site 491916005008 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 491916005009 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 491916005010 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 491916005011 putative homodimer interface [polypeptide binding]; other site 491916005012 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 491916005013 heterodimer interface [polypeptide binding]; other site 491916005014 homodimer interface [polypeptide binding]; other site 491916005015 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 491916005016 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 491916005017 23S rRNA interface [nucleotide binding]; other site 491916005018 L7/L12 interface [polypeptide binding]; other site 491916005019 putative thiostrepton binding site; other site 491916005020 L25 interface [polypeptide binding]; other site 491916005021 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 491916005022 mRNA/rRNA interface [nucleotide binding]; other site 491916005023 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 491916005024 23S rRNA interface [nucleotide binding]; other site 491916005025 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 491916005026 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 491916005027 L11 interface [polypeptide binding]; other site 491916005028 putative EF-Tu interaction site [polypeptide binding]; other site 491916005029 putative EF-G interaction site [polypeptide binding]; other site 491916005030 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 491916005031 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 491916005032 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 491916005033 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 491916005034 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 491916005035 RPB11 interaction site [polypeptide binding]; other site 491916005036 RPB12 interaction site [polypeptide binding]; other site 491916005037 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 491916005038 RPB1 interaction site [polypeptide binding]; other site 491916005039 RPB11 interaction site [polypeptide binding]; other site 491916005040 RPB10 interaction site [polypeptide binding]; other site 491916005041 RPB3 interaction site [polypeptide binding]; other site 491916005042 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 491916005043 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 491916005044 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 491916005045 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 491916005046 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 491916005047 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 491916005048 cleft; other site 491916005049 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 491916005050 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 491916005051 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 491916005052 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 491916005053 DNA binding site [nucleotide binding] 491916005054 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 491916005055 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 491916005056 S17 interaction site [polypeptide binding]; other site 491916005057 S8 interaction site; other site 491916005058 16S rRNA interaction site [nucleotide binding]; other site 491916005059 streptomycin interaction site [chemical binding]; other site 491916005060 23S rRNA interaction site [nucleotide binding]; other site 491916005061 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 491916005062 30S ribosomal protein S7; Validated; Region: PRK05302 491916005063 elongation factor G; Reviewed; Region: PRK00007 491916005064 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 491916005065 G1 box; other site 491916005066 putative GEF interaction site [polypeptide binding]; other site 491916005067 GTP/Mg2+ binding site [chemical binding]; other site 491916005068 Switch I region; other site 491916005069 G2 box; other site 491916005070 G3 box; other site 491916005071 Switch II region; other site 491916005072 G4 box; other site 491916005073 G5 box; other site 491916005074 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 491916005075 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 491916005076 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 491916005077 elongation factor Tu; Reviewed; Region: PRK00049 491916005078 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 491916005079 G1 box; other site 491916005080 GEF interaction site [polypeptide binding]; other site 491916005081 GTP/Mg2+ binding site [chemical binding]; other site 491916005082 Switch I region; other site 491916005083 G2 box; other site 491916005084 G3 box; other site 491916005085 Switch II region; other site 491916005086 G4 box; other site 491916005087 G5 box; other site 491916005088 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 491916005089 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 491916005090 Antibiotic Binding Site [chemical binding]; other site 491916005091 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 491916005092 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 491916005093 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 491916005094 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 491916005095 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 491916005096 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 491916005097 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 491916005098 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 491916005099 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 491916005100 putative translocon binding site; other site 491916005101 protein-rRNA interface [nucleotide binding]; other site 491916005102 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 491916005103 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 491916005104 G-X-X-G motif; other site 491916005105 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 491916005106 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 491916005107 23S rRNA interface [nucleotide binding]; other site 491916005108 5S rRNA interface [nucleotide binding]; other site 491916005109 putative antibiotic binding site [chemical binding]; other site 491916005110 L25 interface [polypeptide binding]; other site 491916005111 L27 interface [polypeptide binding]; other site 491916005112 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 491916005113 23S rRNA interface [nucleotide binding]; other site 491916005114 putative translocon interaction site; other site 491916005115 signal recognition particle (SRP54) interaction site; other site 491916005116 L23 interface [polypeptide binding]; other site 491916005117 trigger factor interaction site; other site 491916005118 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 491916005119 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 491916005120 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 491916005121 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 491916005122 RNA binding site [nucleotide binding]; other site 491916005123 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 491916005124 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 491916005125 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 491916005126 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 491916005127 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 491916005128 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 491916005129 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 491916005130 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 491916005131 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 491916005132 23S rRNA interface [nucleotide binding]; other site 491916005133 L21e interface [polypeptide binding]; other site 491916005134 5S rRNA interface [nucleotide binding]; other site 491916005135 L27 interface [polypeptide binding]; other site 491916005136 L5 interface [polypeptide binding]; other site 491916005137 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 491916005138 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 491916005139 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 491916005140 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 491916005141 23S rRNA binding site [nucleotide binding]; other site 491916005142 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 491916005143 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 491916005144 SecY translocase; Region: SecY; pfam00344 491916005145 adenylate kinase; Reviewed; Region: adk; PRK00279 491916005146 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 491916005147 AMP-binding site [chemical binding]; other site 491916005148 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 491916005149 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 491916005150 30S ribosomal protein S13; Region: bact_S13; TIGR03631 491916005151 30S ribosomal protein S11; Validated; Region: PRK05309 491916005152 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 491916005153 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 491916005154 alphaNTD homodimer interface [polypeptide binding]; other site 491916005155 alphaNTD - beta interaction site [polypeptide binding]; other site 491916005156 alphaNTD - beta' interaction site [polypeptide binding]; other site 491916005157 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 491916005158 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 491916005159 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 491916005160 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916005161 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 491916005162 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 491916005163 TMAO/DMSO reductase; Reviewed; Region: PRK05363 491916005164 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 491916005165 Moco binding site; other site 491916005166 metal coordination site [ion binding]; other site 491916005167 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 491916005168 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 491916005169 Uncharacterized conserved protein [Function unknown]; Region: COG3339 491916005170 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 491916005171 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916005172 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 491916005173 protein binding site [polypeptide binding]; other site 491916005174 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 491916005175 protein binding site [polypeptide binding]; other site 491916005176 recombination factor protein RarA; Reviewed; Region: PRK13342 491916005177 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 491916005178 Walker A motif; other site 491916005179 ATP binding site [chemical binding]; other site 491916005180 Walker B motif; other site 491916005181 arginine finger; other site 491916005182 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 491916005183 CCC1-related family of proteins; Region: CCC1_like; cl00278 491916005184 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 491916005185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916005186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916005187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916005188 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 491916005189 putative effector binding pocket; other site 491916005190 putative dimerization interface [polypeptide binding]; other site 491916005191 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 491916005192 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 491916005193 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 491916005194 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 491916005195 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 491916005196 PAS domain; Region: PAS; smart00091 491916005197 PAS fold; Region: PAS_7; pfam12860 491916005198 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 491916005199 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 491916005200 dimer interface [polypeptide binding]; other site 491916005201 phosphorylation site [posttranslational modification] 491916005202 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 491916005203 ATP binding site [chemical binding]; other site 491916005204 Mg2+ binding site [ion binding]; other site 491916005205 G-X-G motif; other site 491916005206 Immunity protein Imm6; Region: Imm6; pfam14434 491916005207 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916005208 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916005209 DNA binding site [nucleotide binding] 491916005210 domain linker motif; other site 491916005211 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 491916005212 putative dimerization interface [polypeptide binding]; other site 491916005213 putative ligand binding site [chemical binding]; other site 491916005214 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 491916005215 Coenzyme A transferase; Region: CoA_trans; smart00882 491916005216 Coenzyme A transferase; Region: CoA_trans; cl17247 491916005217 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 491916005218 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 491916005219 substrate binding site [chemical binding]; other site 491916005220 oxyanion hole (OAH) forming residues; other site 491916005221 trimer interface [polypeptide binding]; other site 491916005222 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916005223 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 491916005224 NAD(P) binding site [chemical binding]; other site 491916005225 catalytic residues [active] 491916005226 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916005227 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916005228 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916005229 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 491916005230 dimer interface [polypeptide binding]; other site 491916005231 putative PBP binding loops; other site 491916005232 ABC-ATPase subunit interface; other site 491916005233 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916005234 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 491916005235 dimer interface [polypeptide binding]; other site 491916005236 conserved gate region; other site 491916005237 putative PBP binding loops; other site 491916005238 ABC-ATPase subunit interface; other site 491916005239 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916005240 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916005241 Walker A/P-loop; other site 491916005242 ATP binding site [chemical binding]; other site 491916005243 Q-loop/lid; other site 491916005244 ABC transporter signature motif; other site 491916005245 Walker B; other site 491916005246 D-loop; other site 491916005247 H-loop/switch region; other site 491916005248 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 491916005249 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491916005250 choline dehydrogenase; Validated; Region: PRK02106 491916005251 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491916005252 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916005253 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916005254 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916005255 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 491916005256 L-aspartate oxidase; Provisional; Region: PRK06175 491916005257 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 491916005258 putative catalytic site [active] 491916005259 putative phosphate binding site [ion binding]; other site 491916005260 active site 491916005261 metal binding site A [ion binding]; metal-binding site 491916005262 DNA binding site [nucleotide binding] 491916005263 putative AP binding site [nucleotide binding]; other site 491916005264 putative metal binding site B [ion binding]; other site 491916005265 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916005266 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916005267 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 491916005268 active site 491916005269 phosphorylation site [posttranslational modification] 491916005270 intermolecular recognition site; other site 491916005271 dimerization interface [polypeptide binding]; other site 491916005272 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 491916005273 DNA binding residues [nucleotide binding] 491916005274 dimerization interface [polypeptide binding]; other site 491916005275 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 491916005276 Histidine kinase; Region: HisKA_3; pfam07730 491916005277 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 491916005278 ATP binding site [chemical binding]; other site 491916005279 Mg2+ binding site [ion binding]; other site 491916005280 G-X-G motif; other site 491916005281 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 491916005282 S-adenosylmethionine binding site [chemical binding]; other site 491916005283 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 491916005284 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 491916005285 BA14K-like protein; Region: BA14K; pfam07886 491916005286 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916005287 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 491916005288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916005289 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916005290 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 491916005291 cofactor binding site; other site 491916005292 metal binding site [ion binding]; metal-binding site 491916005293 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 491916005294 putative DNA binding site [nucleotide binding]; other site 491916005295 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916005296 putative Zn2+ binding site [ion binding]; other site 491916005297 AsnC family; Region: AsnC_trans_reg; pfam01037 491916005298 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916005299 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 491916005300 putative DNA binding site [nucleotide binding]; other site 491916005301 putative Zn2+ binding site [ion binding]; other site 491916005302 AsnC family; Region: AsnC_trans_reg; pfam01037 491916005303 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 491916005304 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 491916005305 dimer interface [polypeptide binding]; other site 491916005306 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 491916005307 active site 491916005308 Fe binding site [ion binding]; other site 491916005309 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 491916005310 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 491916005311 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491916005312 maleylacetoacetate isomerase; Region: maiA; TIGR01262 491916005313 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 491916005314 C-terminal domain interface [polypeptide binding]; other site 491916005315 GSH binding site (G-site) [chemical binding]; other site 491916005316 putative dimer interface [polypeptide binding]; other site 491916005317 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 491916005318 dimer interface [polypeptide binding]; other site 491916005319 N-terminal domain interface [polypeptide binding]; other site 491916005320 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 491916005321 MEKHLA domain; Region: MEKHLA; pfam08670 491916005322 Predicted periplasmic protein [Function unknown]; Region: COG3904 491916005323 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 491916005324 active site 491916005325 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 491916005326 classical (c) SDRs; Region: SDR_c; cd05233 491916005327 NAD(P) binding site [chemical binding]; other site 491916005328 active site 491916005329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916005330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916005331 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 491916005332 putative effector binding pocket; other site 491916005333 dimerization interface [polypeptide binding]; other site 491916005334 Isochorismatase family; Region: Isochorismatase; pfam00857 491916005335 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 491916005336 catalytic triad [active] 491916005337 dimer interface [polypeptide binding]; other site 491916005338 conserved cis-peptide bond; other site 491916005339 Pirin-related protein [General function prediction only]; Region: COG1741 491916005340 Pirin; Region: Pirin; pfam02678 491916005341 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 491916005342 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 491916005343 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 491916005344 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491916005345 Transcriptional regulator; Region: Transcrip_reg; cl00361 491916005346 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 491916005347 active site 491916005348 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 491916005349 TSCPD domain; Region: TSCPD; pfam12637 491916005350 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916005351 active site 491916005352 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 491916005353 Ligand Binding Site [chemical binding]; other site 491916005354 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 491916005355 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 491916005356 putative MPT binding site; other site 491916005357 threonine dehydratase; Validated; Region: PRK08639 491916005358 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 491916005359 tetramer interface [polypeptide binding]; other site 491916005360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916005361 catalytic residue [active] 491916005362 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 491916005363 Transcriptional activator HlyU; Region: HlyU; pfam10115 491916005364 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916005365 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916005366 metal binding site [ion binding]; metal-binding site 491916005367 active site 491916005368 I-site; other site 491916005369 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 491916005370 short chain dehydrogenase; Provisional; Region: PRK06500 491916005371 classical (c) SDRs; Region: SDR_c; cd05233 491916005372 NAD(P) binding site [chemical binding]; other site 491916005373 active site 491916005374 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916005375 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916005376 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 491916005377 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916005378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916005379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916005380 LysR substrate binding domain; Region: LysR_substrate; pfam03466 491916005381 dimerization interface [polypeptide binding]; other site 491916005382 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 491916005383 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 491916005384 active site 491916005385 metal binding site [ion binding]; metal-binding site 491916005386 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 491916005387 PilZ domain; Region: PilZ; pfam07238 491916005388 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916005389 EamA-like transporter family; Region: EamA; cl17759 491916005390 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916005391 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 491916005392 putative DNA binding site [nucleotide binding]; other site 491916005393 putative Zn2+ binding site [ion binding]; other site 491916005394 AsnC family; Region: AsnC_trans_reg; pfam01037 491916005395 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 491916005396 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 491916005397 hexamer interface [polypeptide binding]; other site 491916005398 ligand binding site [chemical binding]; other site 491916005399 putative active site [active] 491916005400 NAD(P) binding site [chemical binding]; other site 491916005401 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 491916005402 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491916005403 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 491916005404 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 491916005405 active site residue [active] 491916005406 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 491916005407 active site residue [active] 491916005408 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 491916005409 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 491916005410 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 491916005411 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 491916005412 dimer interface [polypeptide binding]; other site 491916005413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916005414 catalytic residue [active] 491916005415 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 491916005416 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 491916005417 short chain dehydrogenase; Provisional; Region: PRK06101 491916005418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916005419 NAD(P) binding site [chemical binding]; other site 491916005420 active site 491916005421 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 491916005422 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 491916005423 S-adenosylmethionine binding site [chemical binding]; other site 491916005424 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 491916005425 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 491916005426 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491916005427 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 491916005428 DNA photolyase; Region: DNA_photolyase; pfam00875 491916005429 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 491916005430 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 491916005431 active site 491916005432 motif I; other site 491916005433 motif II; other site 491916005434 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 491916005435 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 491916005436 [4Fe-4S] binding site [ion binding]; other site 491916005437 molybdopterin cofactor binding site; other site 491916005438 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 491916005439 molybdopterin cofactor binding site; other site 491916005440 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 491916005441 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 491916005442 [2Fe-2S] cluster binding site [ion binding]; other site 491916005443 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 491916005444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916005445 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 491916005446 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 491916005447 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 491916005448 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 491916005449 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 491916005450 putative substrate translocation pore; other site 491916005451 NMT1-like family; Region: NMT1_2; pfam13379 491916005452 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 491916005453 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 491916005454 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 491916005455 active site 491916005456 phosphorylation site [posttranslational modification] 491916005457 intermolecular recognition site; other site 491916005458 ANTAR domain; Region: ANTAR; pfam03861 491916005459 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 491916005460 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 491916005461 dimer interface [polypeptide binding]; other site 491916005462 decamer (pentamer of dimers) interface [polypeptide binding]; other site 491916005463 catalytic triad [active] 491916005464 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 491916005465 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 491916005466 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491916005467 catalytic residue [active] 491916005468 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916005469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916005470 NAD(P) binding site [chemical binding]; other site 491916005471 active site 491916005472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916005473 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 491916005474 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 491916005475 MOFRL family; Region: MOFRL; pfam05161 491916005476 Low affinity iron permease; Region: Iron_permease; pfam04120 491916005477 Low affinity iron permease; Region: Iron_permease; cl12096 491916005478 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; cl00257 491916005479 CsbD-like; Region: CsbD; cl17424 491916005480 KTSC domain; Region: KTSC; pfam13619 491916005481 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 491916005482 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 491916005483 S-adenosylmethionine binding site [chemical binding]; other site 491916005484 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 491916005485 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 491916005486 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 491916005487 HIGH motif; other site 491916005488 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 491916005489 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 491916005490 active site 491916005491 KMSKS motif; other site 491916005492 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 491916005493 tRNA binding surface [nucleotide binding]; other site 491916005494 anticodon binding site; other site 491916005495 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 491916005496 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 491916005497 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 491916005498 Sel1-like repeats; Region: SEL1; smart00671 491916005499 Sel1-like repeats; Region: SEL1; smart00671 491916005500 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 491916005501 putative catalytic site [active] 491916005502 putative phosphate binding site [ion binding]; other site 491916005503 active site 491916005504 metal binding site A [ion binding]; metal-binding site 491916005505 DNA binding site [nucleotide binding] 491916005506 putative AP binding site [nucleotide binding]; other site 491916005507 putative metal binding site B [ion binding]; other site 491916005508 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 491916005509 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 491916005510 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491916005511 Zn2+ binding site [ion binding]; other site 491916005512 Mg2+ binding site [ion binding]; other site 491916005513 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 491916005514 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 491916005515 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 491916005516 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 491916005517 active site 491916005518 HIGH motif; other site 491916005519 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491916005520 KMSK motif region; other site 491916005521 tRNA binding surface [nucleotide binding]; other site 491916005522 DALR anticodon binding domain; Region: DALR_1; smart00836 491916005523 anticodon binding site; other site 491916005524 Sporulation related domain; Region: SPOR; pfam05036 491916005525 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 491916005526 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 491916005527 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 491916005528 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 491916005529 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 491916005530 sec-independent translocase; Provisional; Region: PRK00708 491916005531 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 491916005532 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 491916005533 seryl-tRNA synthetase; Provisional; Region: PRK05431 491916005534 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 491916005535 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 491916005536 dimer interface [polypeptide binding]; other site 491916005537 active site 491916005538 motif 1; other site 491916005539 motif 2; other site 491916005540 motif 3; other site 491916005541 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 491916005542 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 491916005543 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 491916005544 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 491916005545 S-adenosylmethionine binding site [chemical binding]; other site 491916005546 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491916005547 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 491916005548 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491916005549 Peptidase family M23; Region: Peptidase_M23; pfam01551 491916005550 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 491916005551 Protein of unknown function (DUF815); Region: DUF815; pfam05673 491916005552 Walker A motif; other site 491916005553 ATP binding site [chemical binding]; other site 491916005554 Walker B motif; other site 491916005555 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 491916005556 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 491916005557 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 491916005558 Protein export membrane protein; Region: SecD_SecF; pfam02355 491916005559 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 491916005560 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 491916005561 substrate binding pocket [chemical binding]; other site 491916005562 substrate-Mg2+ binding site; other site 491916005563 aspartate-rich region 1; other site 491916005564 aspartate-rich region 2; other site 491916005565 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 491916005566 Glucose inhibited division protein A; Region: GIDA; pfam01134 491916005567 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 491916005568 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 491916005569 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 491916005570 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 491916005571 trigger factor; Provisional; Region: tig; PRK01490 491916005572 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 491916005573 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 491916005574 yich00019; insertion sequence:Integrase, catalytic core 491916005575 yich00020; insertion sequence:Transposase IS3/IS911 491916005576 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 491916005577 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 491916005578 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 491916005579 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 491916005580 FeS/SAM binding site; other site 491916005581 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491916005582 putative catalytic site [active] 491916005583 putative metal binding site [ion binding]; other site 491916005584 putative phosphate binding site [ion binding]; other site 491916005585 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 491916005586 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916005587 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916005588 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491916005589 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 491916005590 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 491916005591 phosphate binding site [ion binding]; other site 491916005592 hypothetical protein; Reviewed; Region: PRK00024 491916005593 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 491916005594 MPN+ (JAMM) motif; other site 491916005595 Zinc-binding site [ion binding]; other site 491916005596 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 491916005597 active site 491916005598 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916005599 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916005600 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 491916005601 metal-dependent hydrolase; Provisional; Region: PRK00685 491916005602 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 491916005603 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 491916005604 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 491916005605 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 491916005606 hypothetical protein; Provisional; Region: PRK13687 491916005607 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916005608 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916005609 Coenzyme A binding pocket [chemical binding]; other site 491916005610 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 491916005611 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 491916005612 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 491916005613 GatB domain; Region: GatB_Yqey; smart00845 491916005614 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 491916005615 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916005616 Coenzyme A binding pocket [chemical binding]; other site 491916005617 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491916005618 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916005619 Coenzyme A binding pocket [chemical binding]; other site 491916005620 NADH dehydrogenase; Validated; Region: PRK08183 491916005621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 491916005622 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 491916005623 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 491916005624 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 491916005625 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491916005626 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 491916005627 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 491916005628 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 491916005629 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 491916005630 carboxyltransferase (CT) interaction site; other site 491916005631 biotinylation site [posttranslational modification]; other site 491916005632 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 491916005633 Dehydroquinase class II; Region: DHquinase_II; pfam01220 491916005634 trimer interface [polypeptide binding]; other site 491916005635 active site 491916005636 dimer interface [polypeptide binding]; other site 491916005637 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 491916005638 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 491916005639 catalytic residues [active] 491916005640 aspartate aminotransferase; Provisional; Region: PRK05764 491916005641 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 491916005642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916005643 homodimer interface [polypeptide binding]; other site 491916005644 catalytic residue [active] 491916005645 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 491916005646 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 491916005647 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 491916005648 Short C-terminal domain; Region: SHOCT; pfam09851 491916005649 aminotransferase; Validated; Region: PRK09148 491916005650 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 491916005651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916005652 homodimer interface [polypeptide binding]; other site 491916005653 catalytic residue [active] 491916005654 homoserine dehydrogenase; Provisional; Region: PRK06349 491916005655 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 491916005656 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 491916005657 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 491916005658 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 491916005659 DHH family; Region: DHH; pfam01368 491916005660 DHHA1 domain; Region: DHHA1; pfam02272 491916005661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 491916005662 Peptidase M15; Region: Peptidase_M15_3; cl01194 491916005663 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916005664 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 491916005665 dimer interface [polypeptide binding]; other site 491916005666 active site 491916005667 metal binding site [ion binding]; metal-binding site 491916005668 glutathione binding site [chemical binding]; other site 491916005669 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 491916005670 DNA-binding site [nucleotide binding]; DNA binding site 491916005671 RNA-binding motif; other site 491916005672 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 491916005673 DNA-binding site [nucleotide binding]; DNA binding site 491916005674 RNA-binding motif; other site 491916005675 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 491916005676 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 491916005677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 491916005678 Right handed beta helix region; Region: Beta_helix; pfam13229 491916005679 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 491916005680 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 491916005681 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916005682 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916005683 Walker A/P-loop; other site 491916005684 ATP binding site [chemical binding]; other site 491916005685 Q-loop/lid; other site 491916005686 ABC transporter signature motif; other site 491916005687 Walker B; other site 491916005688 D-loop; other site 491916005689 H-loop/switch region; other site 491916005690 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 491916005691 dimer interface [polypeptide binding]; other site 491916005692 conserved gate region; other site 491916005693 putative PBP binding loops; other site 491916005694 ABC-ATPase subunit interface; other site 491916005695 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 491916005696 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 491916005697 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 491916005698 dimer interface [polypeptide binding]; other site 491916005699 conserved gate region; other site 491916005700 putative PBP binding loops; other site 491916005701 ABC-ATPase subunit interface; other site 491916005702 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 491916005703 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 491916005704 substrate binding pocket [chemical binding]; other site 491916005705 membrane-bound complex binding site; other site 491916005706 hinge residues; other site 491916005707 cystathionine beta-lyase; Provisional; Region: PRK05967 491916005708 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 491916005709 homodimer interface [polypeptide binding]; other site 491916005710 substrate-cofactor binding pocket; other site 491916005711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916005712 catalytic residue [active] 491916005713 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491916005714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 491916005715 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916005716 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916005717 serine acetyltransferase; Provisional; Region: cysE; PRK11132 491916005718 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 491916005719 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 491916005720 trimer interface [polypeptide binding]; other site 491916005721 active site 491916005722 substrate binding site [chemical binding]; other site 491916005723 CoA binding site [chemical binding]; other site 491916005724 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 491916005725 Phasin protein; Region: Phasin_2; pfam09361 491916005726 Uncharacterized conserved protein [Function unknown]; Region: COG2127 491916005727 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 491916005728 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 491916005729 Walker A motif; other site 491916005730 ATP binding site [chemical binding]; other site 491916005731 Walker B motif; other site 491916005732 arginine finger; other site 491916005733 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 491916005734 Walker A motif; other site 491916005735 ATP binding site [chemical binding]; other site 491916005736 Walker B motif; other site 491916005737 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 491916005738 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 491916005739 HIT family signature motif; other site 491916005740 catalytic residue [active] 491916005741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 491916005742 Protein of unknown function, DUF482; Region: DUF482; pfam04339 491916005743 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 491916005744 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 491916005745 putative active site [active] 491916005746 catalytic site [active] 491916005747 putative metal binding site [ion binding]; other site 491916005748 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 491916005749 homotrimer interaction site [polypeptide binding]; other site 491916005750 putative active site [active] 491916005751 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 491916005752 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 491916005753 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 491916005754 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; cl00057 491916005755 metal ion-dependent adhesion site (MIDAS); other site 491916005756 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 491916005757 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 491916005758 rRNA interaction site [nucleotide binding]; other site 491916005759 S8 interaction site; other site 491916005760 putative laminin-1 binding site; other site 491916005761 elongation factor Ts; Provisional; Region: tsf; PRK09377 491916005762 UBA/TS-N domain; Region: UBA; pfam00627 491916005763 Elongation factor TS; Region: EF_TS; pfam00889 491916005764 Elongation factor TS; Region: EF_TS; pfam00889 491916005765 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 491916005766 putative nucleotide binding site [chemical binding]; other site 491916005767 uridine monophosphate binding site [chemical binding]; other site 491916005768 homohexameric interface [polypeptide binding]; other site 491916005769 ribosome recycling factor; Reviewed; Region: frr; PRK00083 491916005770 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 491916005771 hinge region; other site 491916005772 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 491916005773 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; cd00475 491916005774 catalytic residue [active] 491916005775 putative FPP diphosphate binding site; other site 491916005776 putative FPP binding hydrophobic cleft; other site 491916005777 dimer interface [polypeptide binding]; other site 491916005778 putative IPP diphosphate binding site; other site 491916005779 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 491916005780 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 491916005781 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 491916005782 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 491916005783 active site 491916005784 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 491916005785 protein binding site [polypeptide binding]; other site 491916005786 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 491916005787 putative substrate binding region [chemical binding]; other site 491916005788 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 491916005789 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491916005790 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491916005791 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491916005792 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491916005793 Surface antigen; Region: Bac_surface_Ag; pfam01103 491916005794 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 491916005795 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 491916005796 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 491916005797 trimer interface [polypeptide binding]; other site 491916005798 active site 491916005799 UDP-GlcNAc binding site [chemical binding]; other site 491916005800 lipid binding site [chemical binding]; lipid-binding site 491916005801 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 491916005802 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 491916005803 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 491916005804 active site 491916005805 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 491916005806 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 491916005807 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 491916005808 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 491916005809 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 491916005810 dimer interface [polypeptide binding]; other site 491916005811 active site 491916005812 citrylCoA binding site [chemical binding]; other site 491916005813 NADH binding [chemical binding]; other site 491916005814 cationic pore residues; other site 491916005815 oxalacetate/citrate binding site [chemical binding]; other site 491916005816 coenzyme A binding site [chemical binding]; other site 491916005817 catalytic triad [active] 491916005818 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 491916005819 Competence protein; Region: Competence; pfam03772 491916005820 LexA repressor; Validated; Region: PRK00215 491916005821 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 491916005822 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 491916005823 Catalytic site [active] 491916005824 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 491916005825 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 491916005826 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 491916005827 enolase; Provisional; Region: eno; PRK00077 491916005828 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 491916005829 dimer interface [polypeptide binding]; other site 491916005830 metal binding site [ion binding]; metal-binding site 491916005831 substrate binding pocket [chemical binding]; other site 491916005832 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 491916005833 Septum formation initiator; Region: DivIC; pfam04977 491916005834 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 491916005835 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 491916005836 tetramer interface [polypeptide binding]; other site 491916005837 TPP-binding site [chemical binding]; other site 491916005838 heterodimer interface [polypeptide binding]; other site 491916005839 phosphorylation loop region [posttranslational modification] 491916005840 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 491916005841 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 491916005842 E3 interaction surface; other site 491916005843 lipoyl attachment site [posttranslational modification]; other site 491916005844 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 491916005845 alpha subunit interface [polypeptide binding]; other site 491916005846 TPP binding site [chemical binding]; other site 491916005847 heterodimer interface [polypeptide binding]; other site 491916005848 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491916005849 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 491916005850 E3 interaction surface; other site 491916005851 lipoyl attachment site [posttranslational modification]; other site 491916005852 e3 binding domain; Region: E3_binding; pfam02817 491916005853 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 491916005854 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 491916005855 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 491916005856 active site 491916005857 catalytic triad [active] 491916005858 oxyanion hole [active] 491916005859 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 491916005860 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 491916005861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916005862 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491916005863 Predicted membrane protein [Function unknown]; Region: COG2261 491916005864 lipoyl synthase; Provisional; Region: PRK05481 491916005865 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 491916005866 FeS/SAM binding site; other site 491916005867 ypch00656 491916005868 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 491916005869 putative coenzyme Q binding site [chemical binding]; other site 491916005870 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 491916005871 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 491916005872 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 491916005873 substrate binding site; other site 491916005874 dimer interface; other site 491916005875 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 491916005876 homotrimer interaction site [polypeptide binding]; other site 491916005877 zinc binding site [ion binding]; other site 491916005878 CDP-binding sites; other site 491916005879 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 491916005880 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 491916005881 FMN binding site [chemical binding]; other site 491916005882 active site 491916005883 catalytic residues [active] 491916005884 substrate binding site [chemical binding]; other site 491916005885 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 491916005886 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 491916005887 dimer interface [polypeptide binding]; other site 491916005888 phosphorylation site [posttranslational modification] 491916005889 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 491916005890 ATP binding site [chemical binding]; other site 491916005891 Mg2+ binding site [ion binding]; other site 491916005892 G-X-G motif; other site 491916005893 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 491916005894 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 491916005895 active site 491916005896 phosphorylation site [posttranslational modification] 491916005897 intermolecular recognition site; other site 491916005898 dimerization interface [polypeptide binding]; other site 491916005899 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 491916005900 Walker A motif; other site 491916005901 ATP binding site [chemical binding]; other site 491916005902 Walker B motif; other site 491916005903 arginine finger; other site 491916005904 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 491916005905 Uncharacterized conserved protein [Function unknown]; Region: COG1262 491916005906 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 491916005907 Uncharacterized conserved protein [Function unknown]; Region: COG5361 491916005908 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 491916005909 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 491916005910 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 491916005911 Sulfatase; Region: Sulfatase; pfam00884 491916005912 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 491916005913 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491916005914 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 491916005915 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 491916005916 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 491916005917 active site 491916005918 catalytic tetrad [active] 491916005919 D-serine dehydratase; Provisional; Region: PRK02991 491916005920 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 491916005921 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916005922 catalytic residue [active] 491916005923 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916005924 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916005925 Walker A/P-loop; other site 491916005926 ATP binding site [chemical binding]; other site 491916005927 Q-loop/lid; other site 491916005928 ABC transporter signature motif; other site 491916005929 Walker B; other site 491916005930 D-loop; other site 491916005931 H-loop/switch region; other site 491916005932 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 491916005933 dimer interface [polypeptide binding]; other site 491916005934 conserved gate region; other site 491916005935 putative PBP binding loops; other site 491916005936 ABC-ATPase subunit interface; other site 491916005937 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 491916005938 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 491916005939 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 491916005940 putative PBP binding loops; other site 491916005941 dimer interface [polypeptide binding]; other site 491916005942 ABC-ATPase subunit interface; other site 491916005943 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 491916005944 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 491916005945 substrate binding pocket [chemical binding]; other site 491916005946 membrane-bound complex binding site; other site 491916005947 hinge residues; other site 491916005948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916005949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916005950 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 491916005951 putative dimerization interface [polypeptide binding]; other site 491916005952 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 491916005953 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 491916005954 dimer interface [polypeptide binding]; other site 491916005955 active site 491916005956 glycine-pyridoxal phosphate binding site [chemical binding]; other site 491916005957 folate binding site [chemical binding]; other site 491916005958 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 491916005959 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 491916005960 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 491916005961 homodimer interface [polypeptide binding]; other site 491916005962 NADP binding site [chemical binding]; other site 491916005963 substrate binding site [chemical binding]; other site 491916005964 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 491916005965 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 491916005966 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 491916005967 putative active site [active] 491916005968 putative substrate binding site [chemical binding]; other site 491916005969 putative cosubstrate binding site; other site 491916005970 catalytic site [active] 491916005971 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 491916005972 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 491916005973 dimerization interface [polypeptide binding]; other site 491916005974 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 491916005975 dimer interface [polypeptide binding]; other site 491916005976 phosphorylation site [posttranslational modification] 491916005977 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 491916005978 ATP binding site [chemical binding]; other site 491916005979 Mg2+ binding site [ion binding]; other site 491916005980 G-X-G motif; other site 491916005981 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491916005982 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 491916005983 active site 491916005984 phosphorylation site [posttranslational modification] 491916005985 intermolecular recognition site; other site 491916005986 dimerization interface [polypeptide binding]; other site 491916005987 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 491916005988 Walker A motif; other site 491916005989 ATP binding site [chemical binding]; other site 491916005990 Walker B motif; other site 491916005991 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491916005992 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 491916005993 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 491916005994 homodimer interface [polypeptide binding]; other site 491916005995 substrate-cofactor binding pocket; other site 491916005996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916005997 catalytic residue [active] 491916005998 bacterial Hfq-like; Region: Hfq; cd01716 491916005999 hexamer interface [polypeptide binding]; other site 491916006000 Sm1 motif; other site 491916006001 RNA binding site [nucleotide binding]; other site 491916006002 Sm2 motif; other site 491916006003 GTPases [General function prediction only]; Region: HflX; COG2262 491916006004 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 491916006005 HflX GTPase family; Region: HflX; cd01878 491916006006 G1 box; other site 491916006007 GTP/Mg2+ binding site [chemical binding]; other site 491916006008 Switch I region; other site 491916006009 G2 box; other site 491916006010 G3 box; other site 491916006011 Switch II region; other site 491916006012 G4 box; other site 491916006013 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 491916006014 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 491916006015 homodimer interface [polypeptide binding]; other site 491916006016 metal binding site [ion binding]; metal-binding site 491916006017 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 491916006018 homodimer interface [polypeptide binding]; other site 491916006019 active site 491916006020 putative chemical substrate binding site [chemical binding]; other site 491916006021 metal binding site [ion binding]; metal-binding site 491916006022 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 491916006023 nucleoside/Zn binding site; other site 491916006024 dimer interface [polypeptide binding]; other site 491916006025 catalytic motif [active] 491916006026 siroheme synthase; Provisional; Region: cysG; PRK10637 491916006027 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 491916006028 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 491916006029 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 491916006030 active site 491916006031 SAM binding site [chemical binding]; other site 491916006032 homodimer interface [polypeptide binding]; other site 491916006033 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 491916006034 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 491916006035 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 491916006036 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 491916006037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 491916006038 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 491916006039 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491916006040 Predicted permeases [General function prediction only]; Region: COG0679 491916006041 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 491916006042 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 491916006043 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 491916006044 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 491916006045 hypothetical protein; Provisional; Region: PRK06834 491916006046 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491916006047 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491916006048 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916006049 cyclase homology domain; Region: CHD; cd07302 491916006050 nucleotidyl binding site; other site 491916006051 metal binding site [ion binding]; metal-binding site 491916006052 dimer interface [polypeptide binding]; other site 491916006053 EamA-like transporter family; Region: EamA; pfam00892 491916006054 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491916006055 EamA-like transporter family; Region: EamA; pfam00892 491916006056 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916006057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916006058 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 491916006059 dimerization interface [polypeptide binding]; other site 491916006060 substrate binding pocket [chemical binding]; other site 491916006061 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916006062 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916006063 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 491916006064 Walker A/P-loop; other site 491916006065 ATP binding site [chemical binding]; other site 491916006066 Q-loop/lid; other site 491916006067 ABC transporter signature motif; other site 491916006068 Walker B; other site 491916006069 D-loop; other site 491916006070 H-loop/switch region; other site 491916006071 Protein of unknown function (DUF982); Region: DUF982; pfam06169 491916006072 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 491916006073 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916006074 cyclase homology domain; Region: CHD; cd07302 491916006075 nucleotidyl binding site; other site 491916006076 metal binding site [ion binding]; metal-binding site 491916006077 dimer interface [polypeptide binding]; other site 491916006078 Protein of unknown function (DUF982); Region: DUF982; pfam06169 491916006079 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 491916006080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3828 491916006081 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916006082 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916006083 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 491916006084 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916006085 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491916006086 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916006087 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916006088 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 491916006089 dimer interface [polypeptide binding]; other site 491916006090 conserved gate region; other site 491916006091 putative PBP binding loops; other site 491916006092 ABC-ATPase subunit interface; other site 491916006093 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916006094 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 491916006095 dimer interface [polypeptide binding]; other site 491916006096 conserved gate region; other site 491916006097 putative PBP binding loops; other site 491916006098 ABC-ATPase subunit interface; other site 491916006099 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916006100 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916006101 Walker A/P-loop; other site 491916006102 ATP binding site [chemical binding]; other site 491916006103 Q-loop/lid; other site 491916006104 ABC transporter signature motif; other site 491916006105 Walker B; other site 491916006106 D-loop; other site 491916006107 H-loop/switch region; other site 491916006108 TOBE domain; Region: TOBE_2; pfam08402 491916006109 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 491916006110 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916006111 putative active site [active] 491916006112 catalytic residue [active] 491916006113 D-mannonate dehydratase [Carbohydrate transport and metabolism]; Region: UxuA; COG1312 491916006114 mannonate dehydratase; Region: uxuA; TIGR00695 491916006115 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916006116 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916006117 DNA-binding site [nucleotide binding]; DNA binding site 491916006118 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 491916006119 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916006120 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 491916006121 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916006122 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 491916006123 dimer interface [polypeptide binding]; other site 491916006124 conserved gate region; other site 491916006125 putative PBP binding loops; other site 491916006126 ABC-ATPase subunit interface; other site 491916006127 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 491916006128 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916006129 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 491916006130 dimer interface [polypeptide binding]; other site 491916006131 conserved gate region; other site 491916006132 putative PBP binding loops; other site 491916006133 ABC-ATPase subunit interface; other site 491916006134 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916006135 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916006136 Walker A/P-loop; other site 491916006137 ATP binding site [chemical binding]; other site 491916006138 Q-loop/lid; other site 491916006139 ABC transporter signature motif; other site 491916006140 Walker B; other site 491916006141 D-loop; other site 491916006142 H-loop/switch region; other site 491916006143 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916006144 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916006145 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916006146 Walker A/P-loop; other site 491916006147 ATP binding site [chemical binding]; other site 491916006148 Q-loop/lid; other site 491916006149 ABC transporter signature motif; other site 491916006150 Walker B; other site 491916006151 D-loop; other site 491916006152 H-loop/switch region; other site 491916006153 Predicted flavoprotein [General function prediction only]; Region: COG0431 491916006154 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916006155 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916006156 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916006157 DNA binding site [nucleotide binding] 491916006158 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 491916006159 ligand binding site [chemical binding]; other site 491916006160 dimerization interface [polypeptide binding]; other site 491916006161 yhch00681 491916006162 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916006163 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916006164 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 491916006165 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 491916006166 dimer interface [polypeptide binding]; other site 491916006167 ABC-ATPase subunit interface; other site 491916006168 putative PBP binding loops; other site 491916006169 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916006170 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 491916006171 dimer interface [polypeptide binding]; other site 491916006172 conserved gate region; other site 491916006173 putative PBP binding loops; other site 491916006174 ABC-ATPase subunit interface; other site 491916006175 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916006176 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916006177 Walker A/P-loop; other site 491916006178 ATP binding site [chemical binding]; other site 491916006179 Q-loop/lid; other site 491916006180 ABC transporter signature motif; other site 491916006181 Walker B; other site 491916006182 D-loop; other site 491916006183 H-loop/switch region; other site 491916006184 TOBE domain; Region: TOBE_2; pfam08402 491916006185 DnaJ_C chaperone protein; Provisional; Region: PTZ00037 491916006186 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916006187 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916006188 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916006189 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916006190 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491916006191 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491916006192 Walker A/P-loop; other site 491916006193 ATP binding site [chemical binding]; other site 491916006194 Q-loop/lid; other site 491916006195 ABC transporter signature motif; other site 491916006196 Walker B; other site 491916006197 D-loop; other site 491916006198 H-loop/switch region; other site 491916006199 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491916006200 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 491916006201 FtsX-like permease family; Region: FtsX; pfam02687 491916006202 transcriptional regulator NanR; Provisional; Region: PRK03837 491916006203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916006204 DNA-binding site [nucleotide binding]; DNA binding site 491916006205 FCD domain; Region: FCD; pfam07729 491916006206 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 491916006207 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 491916006208 FAD binding pocket [chemical binding]; other site 491916006209 FAD binding motif [chemical binding]; other site 491916006210 phosphate binding motif [ion binding]; other site 491916006211 beta-alpha-beta structure motif; other site 491916006212 NAD binding pocket [chemical binding]; other site 491916006213 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 491916006214 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 491916006215 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 491916006216 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 491916006217 NADP binding site [chemical binding]; other site 491916006218 dimer interface [polypeptide binding]; other site 491916006219 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 491916006220 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916006221 Walker A/P-loop; other site 491916006222 ATP binding site [chemical binding]; other site 491916006223 Q-loop/lid; other site 491916006224 ABC transporter signature motif; other site 491916006225 Walker B; other site 491916006226 D-loop; other site 491916006227 H-loop/switch region; other site 491916006228 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916006229 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916006230 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 491916006231 TM-ABC transporter signature motif; other site 491916006232 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 491916006233 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916006234 TM-ABC transporter signature motif; other site 491916006235 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 491916006236 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 491916006237 putative ligand binding site [chemical binding]; other site 491916006238 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916006239 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 491916006240 putative ligand binding site [chemical binding]; other site 491916006241 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916006242 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916006243 Walker A/P-loop; other site 491916006244 ATP binding site [chemical binding]; other site 491916006245 Q-loop/lid; other site 491916006246 ABC transporter signature motif; other site 491916006247 Walker B; other site 491916006248 D-loop; other site 491916006249 H-loop/switch region; other site 491916006250 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916006251 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916006252 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 491916006253 TM-ABC transporter signature motif; other site 491916006254 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916006255 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 491916006256 TM-ABC transporter signature motif; other site 491916006257 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916006258 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916006259 DNA-binding site [nucleotide binding]; DNA binding site 491916006260 FCD domain; Region: FCD; pfam07729 491916006261 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 491916006262 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 491916006263 Substrate binding site; other site 491916006264 Mg++ binding site; other site 491916006265 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 491916006266 active site 491916006267 substrate binding site [chemical binding]; other site 491916006268 CoA binding site [chemical binding]; other site 491916006269 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 491916006270 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 491916006271 glutaminase active site [active] 491916006272 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 491916006273 dimer interface [polypeptide binding]; other site 491916006274 active site 491916006275 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 491916006276 dimer interface [polypeptide binding]; other site 491916006277 active site 491916006278 Uncharacterized conserved protein [Function unknown]; Region: COG2928 491916006279 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 491916006280 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 491916006281 generic binding surface II; other site 491916006282 ssDNA binding site; other site 491916006283 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 491916006284 ATP binding site [chemical binding]; other site 491916006285 putative Mg++ binding site [ion binding]; other site 491916006286 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 491916006287 nucleotide binding region [chemical binding]; other site 491916006288 ATP-binding site [chemical binding]; other site 491916006289 Uncharacterized conserved protein [Function unknown]; Region: COG2938 491916006290 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 491916006291 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 491916006292 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 491916006293 ATP binding site [chemical binding]; other site 491916006294 putative Mg++ binding site [ion binding]; other site 491916006295 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 491916006296 nucleotide binding region [chemical binding]; other site 491916006297 ATP-binding site [chemical binding]; other site 491916006298 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 491916006299 OsmC-like protein; Region: OsmC; cl00767 491916006300 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 491916006301 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 491916006302 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 491916006303 catalytic residues [active] 491916006304 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 491916006305 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 491916006306 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 491916006307 Oxysterol-binding protein; Region: Oxysterol_BP; pfam01237 491916006308 Uncharacterized conserved protein [Function unknown]; Region: COG3785 491916006309 glutamine synthetase; Provisional; Region: glnA; PRK09469 491916006310 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 491916006311 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491916006312 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 491916006313 Nitrogen regulatory protein P-II; Region: P-II; smart00938 491916006314 Uncharacterized conserved protein [Function unknown]; Region: COG0062 491916006315 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 491916006316 putative substrate binding site [chemical binding]; other site 491916006317 putative ATP binding site [chemical binding]; other site 491916006318 Protein of unknown function DUF72; Region: DUF72; pfam01904 491916006319 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916006320 Coenzyme A binding pocket [chemical binding]; other site 491916006321 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 491916006322 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 491916006323 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 491916006324 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 491916006325 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 491916006326 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 491916006327 dimer interface [polypeptide binding]; other site 491916006328 ssDNA binding site [nucleotide binding]; other site 491916006329 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491916006330 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 491916006331 DNA gyrase subunit A; Validated; Region: PRK05560 491916006332 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 491916006333 CAP-like domain; other site 491916006334 active site 491916006335 primary dimer interface [polypeptide binding]; other site 491916006336 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491916006337 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491916006338 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491916006339 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491916006340 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491916006341 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 491916006342 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 491916006343 active site 491916006344 (T/H)XGH motif; other site 491916006345 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 491916006346 active site 491916006347 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 491916006348 active site 491916006349 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 491916006350 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 491916006351 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 491916006352 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 491916006353 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916006354 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 491916006355 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 491916006356 dimer interface [polypeptide binding]; other site 491916006357 active site 491916006358 Predicted transcriptional regulators [Transcription]; Region: COG1733 491916006359 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491916006360 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 491916006361 nudix motif; other site 491916006362 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916006363 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 491916006364 active site 491916006365 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491916006366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916006367 Walker A/P-loop; other site 491916006368 ATP binding site [chemical binding]; other site 491916006369 Q-loop/lid; other site 491916006370 ABC transporter signature motif; other site 491916006371 Walker B; other site 491916006372 D-loop; other site 491916006373 H-loop/switch region; other site 491916006374 TOBE domain; Region: TOBE_2; pfam08402 491916006375 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 491916006376 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 491916006377 dimer interface [polypeptide binding]; other site 491916006378 conserved gate region; other site 491916006379 putative PBP binding loops; other site 491916006380 ABC-ATPase subunit interface; other site 491916006381 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 491916006382 dimer interface [polypeptide binding]; other site 491916006383 conserved gate region; other site 491916006384 putative PBP binding loops; other site 491916006385 ABC-ATPase subunit interface; other site 491916006386 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491916006387 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916006388 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916006389 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491916006390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916006391 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 491916006392 active site 491916006393 phosphorylation site [posttranslational modification] 491916006394 intermolecular recognition site; other site 491916006395 dimerization interface [polypeptide binding]; other site 491916006396 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 491916006397 DNA binding site [nucleotide binding] 491916006398 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 491916006399 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 491916006400 dimer interface [polypeptide binding]; other site 491916006401 phosphorylation site [posttranslational modification] 491916006402 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 491916006403 ATP binding site [chemical binding]; other site 491916006404 Mg2+ binding site [ion binding]; other site 491916006405 G-X-G motif; other site 491916006406 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 491916006407 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491916006408 active site 491916006409 metal binding site [ion binding]; metal-binding site 491916006410 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916006411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916006412 Walker A/P-loop; other site 491916006413 ATP binding site [chemical binding]; other site 491916006414 Q-loop/lid; other site 491916006415 ABC transporter signature motif; other site 491916006416 Walker B; other site 491916006417 D-loop; other site 491916006418 H-loop/switch region; other site 491916006419 TOBE domain; Region: TOBE_2; pfam08402 491916006420 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 491916006421 putative PBP binding loops; other site 491916006422 ABC-ATPase subunit interface; other site 491916006423 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916006424 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 491916006425 dimer interface [polypeptide binding]; other site 491916006426 putative PBP binding loops; other site 491916006427 ABC-ATPase subunit interface; other site 491916006428 ypch00716 491916006429 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916006430 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916006431 DNA binding site [nucleotide binding] 491916006432 domain linker motif; other site 491916006433 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 491916006434 putative dimerization interface [polypeptide binding]; other site 491916006435 putative ligand binding site [chemical binding]; other site 491916006436 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 491916006437 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 491916006438 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491916006439 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491916006440 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 491916006441 putative substrate translocation pore; other site 491916006442 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916006443 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 491916006444 DNA binding site [nucleotide binding] 491916006445 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916006446 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 491916006447 TPR motif; other site 491916006448 binding surface 491916006449 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 491916006450 putative catalytic residues [active] 491916006451 Double zinc ribbon; Region: DZR; pfam12773 491916006452 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 491916006453 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 491916006454 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916006455 cyclase homology domain; Region: CHD; cd07302 491916006456 nucleotidyl binding site; other site 491916006457 metal binding site [ion binding]; metal-binding site 491916006458 dimer interface [polypeptide binding]; other site 491916006459 Predicted ATPase [General function prediction only]; Region: COG3899 491916006460 AAA ATPase domain; Region: AAA_16; pfam13191 491916006461 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 491916006462 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491916006463 TPR motif; other site 491916006464 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 491916006465 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916006466 Walker A/P-loop; other site 491916006467 ATP binding site [chemical binding]; other site 491916006468 Q-loop/lid; other site 491916006469 ABC transporter signature motif; other site 491916006470 Walker B; other site 491916006471 D-loop; other site 491916006472 H-loop/switch region; other site 491916006473 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 491916006474 dimer interface [polypeptide binding]; other site 491916006475 conserved gate region; other site 491916006476 putative PBP binding loops; other site 491916006477 ABC-ATPase subunit interface; other site 491916006478 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916006479 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 491916006480 dimer interface [polypeptide binding]; other site 491916006481 conserved gate region; other site 491916006482 putative PBP binding loops; other site 491916006483 ABC-ATPase subunit interface; other site 491916006484 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916006485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916006486 DNA-binding site [nucleotide binding]; DNA binding site 491916006487 FCD domain; Region: FCD; pfam07729 491916006488 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 491916006489 agmatinase; Region: agmatinase; TIGR01230 491916006490 oligomer interface [polypeptide binding]; other site 491916006491 putative active site [active] 491916006492 Mn binding site [ion binding]; other site 491916006493 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 491916006494 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 491916006495 substrate binding pocket [chemical binding]; other site 491916006496 membrane-bound complex binding site; other site 491916006497 hinge residues; other site 491916006498 aminotransferase; Provisional; Region: PRK06105 491916006499 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 491916006500 inhibitor-cofactor binding pocket; inhibition site 491916006501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916006502 catalytic residue [active] 491916006503 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 491916006504 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 491916006505 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916006506 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 491916006507 tetramerization interface [polypeptide binding]; other site 491916006508 NAD(P) binding site [chemical binding]; other site 491916006509 catalytic residues [active] 491916006510 CHASE domain; Region: CHASE; cl01369 491916006511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916006512 metal binding site [ion binding]; metal-binding site 491916006513 active site 491916006514 I-site; other site 491916006515 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 491916006516 TniQ; Region: TniQ; pfam06527 491916006517 AAA domain; Region: AAA_22; pfam13401 491916006518 yich00021; insertion sequence:integrase (catalytic region) protein 491916006519 Cation efflux family; Region: Cation_efflux; cl00316 491916006520 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 491916006521 Protein of unknown function (DUF461); Region: DUF461; cl01071 491916006522 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 491916006523 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 491916006524 Cu(I) binding site [ion binding]; other site 491916006525 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 491916006526 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491916006527 catalytic residues [active] 491916006528 Protein of unknown function, DUF; Region: DUF411; cl01142 491916006529 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 491916006530 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 491916006531 Multicopper oxidase; Region: Cu-oxidase; pfam00394 491916006532 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 491916006533 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 491916006534 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 491916006535 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916006536 YtkA-like; Region: YtkA; pfam13115 491916006537 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 491916006538 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491916006539 Walker A motif; other site 491916006540 ATP binding site [chemical binding]; other site 491916006541 Walker B motif; other site 491916006542 arginine finger; other site 491916006543 Peptidase family M41; Region: Peptidase_M41; pfam01434 491916006544 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 491916006545 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 491916006546 ATP binding site [chemical binding]; other site 491916006547 putative Mg++ binding site [ion binding]; other site 491916006548 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 491916006549 ATP-binding site [chemical binding]; other site 491916006550 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 491916006551 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 491916006552 ypch00733 491916006553 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916006554 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 491916006555 dimerization interface [polypeptide binding]; other site 491916006556 putative DNA binding site [nucleotide binding]; other site 491916006557 putative Zn2+ binding site [ion binding]; other site 491916006558 AsnC family; Region: AsnC_trans_reg; pfam01037 491916006559 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 491916006560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916006561 catalytic residue [active] 491916006562 allantoate amidohydrolase; Reviewed; Region: PRK12890 491916006563 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 491916006564 active site 491916006565 metal binding site [ion binding]; metal-binding site 491916006566 dimer interface [polypeptide binding]; other site 491916006567 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 491916006568 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 491916006569 metal binding site [ion binding]; metal-binding site 491916006570 putative dimer interface [polypeptide binding]; other site 491916006571 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 491916006572 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 491916006573 putative hydrolase; Provisional; Region: PRK02113 491916006574 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 491916006575 active site 491916006576 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 491916006577 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 491916006578 active site 491916006579 HIGH motif; other site 491916006580 KMSKS motif; other site 491916006581 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 491916006582 tRNA binding surface [nucleotide binding]; other site 491916006583 anticodon binding site; other site 491916006584 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491916006585 DNA polymerase III subunit delta'; Validated; Region: PRK09112 491916006586 AAA ATPase domain; Region: AAA_16; pfam13191 491916006587 DNA polymerase III subunit delta'; Validated; Region: PRK08485 491916006588 thymidylate kinase; Validated; Region: tmk; PRK00698 491916006589 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 491916006590 TMP-binding site; other site 491916006591 ATP-binding site [chemical binding]; other site 491916006592 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 491916006593 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491916006594 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 491916006595 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 491916006596 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 491916006597 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 491916006598 homotrimer interaction site [polypeptide binding]; other site 491916006599 putative active site [active] 491916006600 tetracycline repressor protein TetR; Provisional; Region: PRK13756 491916006601 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916006602 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 491916006603 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491916006604 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 491916006605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916006606 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 491916006607 putative substrate binding pocket [chemical binding]; other site 491916006608 putative dimerization interface [polypeptide binding]; other site 491916006609 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 491916006610 PhnA protein; Region: PhnA; pfam03831 491916006611 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 491916006612 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 491916006613 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 491916006614 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 491916006615 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 491916006616 Predicted membrane protein [Function unknown]; Region: COG2261 491916006617 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 491916006618 SurA N-terminal domain; Region: SurA_N_3; cl07813 491916006619 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 491916006620 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 491916006621 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 491916006622 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 491916006623 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 491916006624 active site 491916006625 ribulose/triose binding site [chemical binding]; other site 491916006626 phosphate binding site [ion binding]; other site 491916006627 substrate (anthranilate) binding pocket [chemical binding]; other site 491916006628 product (indole) binding pocket [chemical binding]; other site 491916006629 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 491916006630 trimer interface [polypeptide binding]; other site 491916006631 dimer interface [polypeptide binding]; other site 491916006632 putative active site [active] 491916006633 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 491916006634 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 491916006635 dimer interface [polypeptide binding]; other site 491916006636 putative functional site; other site 491916006637 putative MPT binding site; other site 491916006638 Predicted methyltransferase [General function prediction only]; Region: COG3897 491916006639 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 491916006640 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 491916006641 ATP binding site [chemical binding]; other site 491916006642 Mg++ binding site [ion binding]; other site 491916006643 motif III; other site 491916006644 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 491916006645 nucleotide binding region [chemical binding]; other site 491916006646 ATP-binding site [chemical binding]; other site 491916006647 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 491916006648 RNA binding site [nucleotide binding]; other site 491916006649 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 491916006650 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916006651 cyclase homology domain; Region: CHD; cd07302 491916006652 nucleotidyl binding site; other site 491916006653 metal binding site [ion binding]; metal-binding site 491916006654 dimer interface [polypeptide binding]; other site 491916006655 FecR protein; Region: FecR; pfam04773 491916006656 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 491916006657 dimer interface [polypeptide binding]; other site 491916006658 active site 491916006659 coenzyme A binding site [chemical binding]; other site 491916006660 citrylCoA binding site [chemical binding]; other site 491916006661 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 491916006662 oxalacetate/citrate binding site [chemical binding]; other site 491916006663 catalytic triad [active] 491916006664 Bacillus subtilis (Bs) citrate synthase CS-I_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). 2MCS catalyzes the...; Region: BsCS-I_like; cd06109 491916006665 dimer interface [polypeptide binding]; other site 491916006666 Citrate synthase; Region: Citrate_synt; pfam00285 491916006667 active site 491916006668 citrylCoA binding site [chemical binding]; other site 491916006669 oxalacetate/citrate binding site [chemical binding]; other site 491916006670 coenzyme A binding site [chemical binding]; other site 491916006671 catalytic triad [active] 491916006672 CTP synthetase; Validated; Region: pyrG; PRK05380 491916006673 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 491916006674 Catalytic site [active] 491916006675 active site 491916006676 UTP binding site [chemical binding]; other site 491916006677 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 491916006678 active site 491916006679 putative oxyanion hole; other site 491916006680 catalytic triad [active] 491916006681 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 491916006682 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 491916006683 triosephosphate isomerase; Provisional; Region: PRK14565 491916006684 substrate binding site [chemical binding]; other site 491916006685 dimer interface [polypeptide binding]; other site 491916006686 catalytic triad [active] 491916006687 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491916006688 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 491916006689 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 491916006690 Mg2+ binding site [ion binding]; other site 491916006691 G-X-G motif; other site 491916006692 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 491916006693 anchoring element; other site 491916006694 dimer interface [polypeptide binding]; other site 491916006695 ATP binding site [chemical binding]; other site 491916006696 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 491916006697 active site 491916006698 metal binding site [ion binding]; metal-binding site 491916006699 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 491916006700 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 491916006701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 491916006702 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491916006703 Domain of unknown function DUF20; Region: UPF0118; pfam01594 491916006704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916006705 Coenzyme A binding pocket [chemical binding]; other site 491916006706 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916006707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 491916006708 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 491916006709 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 491916006710 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 491916006711 putative FMN binding site [chemical binding]; other site 491916006712 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 491916006713 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 491916006714 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 491916006715 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 491916006716 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 491916006717 active site 491916006718 dimer interface [polypeptide binding]; other site 491916006719 motif 1; other site 491916006720 motif 2; other site 491916006721 motif 3; other site 491916006722 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 491916006723 anticodon binding site; other site 491916006724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 491916006725 hypothetical protein; Validated; Region: PRK00041 491916006726 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 491916006727 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 491916006728 trimerization site [polypeptide binding]; other site 491916006729 active site 491916006730 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 491916006731 GTP cyclohydrolase I; Provisional; Region: PLN03044 491916006732 active site 491916006733 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 491916006734 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 491916006735 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 491916006736 active site 491916006737 nucleophile elbow; other site 491916006738 FOG: CBS domain [General function prediction only]; Region: COG0517 491916006739 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 491916006740 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 491916006741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 491916006742 PAS domain; Region: PAS_5; pfam07310 491916006743 PilZ domain; Region: PilZ; pfam07238 491916006744 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 491916006745 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 491916006746 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491916006747 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 491916006748 Sporulation related domain; Region: SPOR; pfam05036 491916006749 Uncharacterized conserved protein [Function unknown]; Region: COG5458 491916006750 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 491916006751 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 491916006752 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 491916006753 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 491916006754 CoA-transferase family III; Region: CoA_transf_3; pfam02515 491916006755 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 491916006756 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916006757 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 491916006758 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 491916006759 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 491916006760 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 491916006761 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 491916006762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 491916006763 FAD binding site [chemical binding]; other site 491916006764 substrate binding pocket [chemical binding]; other site 491916006765 catalytic base [active] 491916006766 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916006767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916006768 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 491916006769 dimerization interface [polypeptide binding]; other site 491916006770 substrate binding pocket [chemical binding]; other site 491916006771 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 491916006772 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 491916006773 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 491916006774 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 491916006775 ligand binding site [chemical binding]; other site 491916006776 NAD binding site [chemical binding]; other site 491916006777 catalytic site [active] 491916006778 Phosphotransferase enzyme family; Region: APH; pfam01636 491916006779 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 491916006780 active site 491916006781 substrate binding site [chemical binding]; other site 491916006782 ATP binding site [chemical binding]; other site 491916006783 Predicted flavoprotein [General function prediction only]; Region: COG0431 491916006784 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916006785 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 491916006786 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491916006787 NAD(P) binding site [chemical binding]; other site 491916006788 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 491916006789 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491916006790 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 491916006791 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 491916006792 tetramer interface [polypeptide binding]; other site 491916006793 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 491916006794 tetramer interface [polypeptide binding]; other site 491916006795 active site 491916006796 metal binding site [ion binding]; metal-binding site 491916006797 enolase; Provisional; Region: eno; PRK00077 491916006798 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 491916006799 dimer interface [polypeptide binding]; other site 491916006800 metal binding site [ion binding]; metal-binding site 491916006801 substrate binding pocket [chemical binding]; other site 491916006802 Cupin domain; Region: Cupin_2; pfam07883 491916006803 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 491916006804 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491916006805 Walker A/P-loop; other site 491916006806 ATP binding site [chemical binding]; other site 491916006807 Q-loop/lid; other site 491916006808 ABC transporter signature motif; other site 491916006809 Walker B; other site 491916006810 D-loop; other site 491916006811 H-loop/switch region; other site 491916006812 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 491916006813 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 491916006814 TM-ABC transporter signature motif; other site 491916006815 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916006816 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491916006817 Walker A/P-loop; other site 491916006818 ATP binding site [chemical binding]; other site 491916006819 Q-loop/lid; other site 491916006820 ABC transporter signature motif; other site 491916006821 Walker B; other site 491916006822 D-loop; other site 491916006823 H-loop/switch region; other site 491916006824 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 491916006825 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916006826 TM-ABC transporter signature motif; other site 491916006827 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916006828 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916006829 DNA binding site [nucleotide binding] 491916006830 domain linker motif; other site 491916006831 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 491916006832 dimerization interface [polypeptide binding]; other site 491916006833 ligand binding site [chemical binding]; other site 491916006834 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 491916006835 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 491916006836 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 491916006837 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 491916006838 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491916006839 Predicted membrane protein [Function unknown]; Region: COG3821 491916006840 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 491916006841 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 491916006842 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 491916006843 DNA binding residues [nucleotide binding] 491916006844 putative dimer interface [polypeptide binding]; other site 491916006845 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 491916006846 MgtE intracellular N domain; Region: MgtE_N; smart00924 491916006847 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 491916006848 Divalent cation transporter; Region: MgtE; cl00786 491916006849 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 491916006850 active site 491916006851 catalytic residues [active] 491916006852 metal binding site [ion binding]; metal-binding site 491916006853 BON domain; Region: BON; pfam04972 491916006854 Phospholipid methyltransferase; Region: PEMT; cl17370 491916006855 lipoate-protein ligase B; Provisional; Region: PRK14341 491916006856 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916006857 EamA-like transporter family; Region: EamA; pfam00892 491916006858 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 491916006859 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491916006860 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 491916006861 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 491916006862 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 491916006863 carboxyltransferase (CT) interaction site; other site 491916006864 biotinylation site [posttranslational modification]; other site 491916006865 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 491916006866 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 491916006867 substrate binding site [chemical binding]; other site 491916006868 catalytic Zn binding site [ion binding]; other site 491916006869 NAD binding site [chemical binding]; other site 491916006870 structural Zn binding site [ion binding]; other site 491916006871 dimer interface [polypeptide binding]; other site 491916006872 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916006873 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916006874 Coenzyme A binding pocket [chemical binding]; other site 491916006875 hypothetical protein; Validated; Region: PRK00124 491916006876 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 491916006877 Predicted membrane protein [Function unknown]; Region: COG2259 491916006878 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 491916006879 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 491916006880 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 491916006881 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 491916006882 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 491916006883 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 491916006884 motif II; other site 491916006885 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 491916006886 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491916006887 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491916006888 active site 491916006889 camphor resistance protein CrcB; Provisional; Region: PRK14195 491916006890 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 491916006891 Protein of unknown function (DUF461); Region: DUF461; pfam04314 491916006892 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 491916006893 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491916006894 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 491916006895 lipoyl attachment site [posttranslational modification]; other site 491916006896 glycine dehydrogenase; Provisional; Region: PRK05367 491916006897 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 491916006898 tetramer interface [polypeptide binding]; other site 491916006899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916006900 catalytic residue [active] 491916006901 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 491916006902 tetramer interface [polypeptide binding]; other site 491916006903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916006904 catalytic residue [active] 491916006905 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 491916006906 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 491916006907 active site 491916006908 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 491916006909 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 491916006910 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 491916006911 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 491916006912 Domain of unknown function DUF59; Region: DUF59; cl00941 491916006913 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 491916006914 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 491916006915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916006916 catalytic residue [active] 491916006917 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 491916006918 FeS assembly protein SufD; Region: sufD; TIGR01981 491916006919 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 491916006920 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 491916006921 Walker A/P-loop; other site 491916006922 ATP binding site [chemical binding]; other site 491916006923 Q-loop/lid; other site 491916006924 ABC transporter signature motif; other site 491916006925 Walker B; other site 491916006926 D-loop; other site 491916006927 H-loop/switch region; other site 491916006928 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 491916006929 putative ABC transporter; Region: ycf24; CHL00085 491916006930 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 491916006931 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 491916006932 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916006933 catalytic residue [active] 491916006934 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 491916006935 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916006936 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491916006937 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916006938 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 491916006939 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 491916006940 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 491916006941 active site 491916006942 HIGH motif; other site 491916006943 dimer interface [polypeptide binding]; other site 491916006944 KMSKS motif; other site 491916006945 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 491916006946 RNA binding surface [nucleotide binding]; other site 491916006947 trehalose synthase; Region: treS_nterm; TIGR02456 491916006948 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 491916006949 active site 491916006950 catalytic site [active] 491916006951 Protein of unknown function; Region: DUF3971; pfam13116 491916006952 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 491916006953 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 491916006954 catalytic triad [active] 491916006955 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 491916006956 dinuclear metal binding motif [ion binding]; other site 491916006957 Synaptobrevin; Region: Synaptobrevin; pfam00957 491916006958 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 491916006959 Peptidase family M23; Region: Peptidase_M23; pfam01551 491916006960 helicase 45; Provisional; Region: PTZ00424 491916006961 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 491916006962 ATP binding site [chemical binding]; other site 491916006963 Mg++ binding site [ion binding]; other site 491916006964 motif III; other site 491916006965 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 491916006966 nucleotide binding region [chemical binding]; other site 491916006967 ATP-binding site [chemical binding]; other site 491916006968 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; cl00447 491916006969 nudix motif; other site 491916006970 TfoX N-terminal domain; Region: TfoX_N; pfam04993 491916006971 Flavin Reductases; Region: FlaRed; cl00801 491916006972 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 491916006973 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 491916006974 ligand binding site [chemical binding]; other site 491916006975 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 491916006976 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 491916006977 substrate binding site [chemical binding]; other site 491916006978 hexamer interface [polypeptide binding]; other site 491916006979 metal binding site [ion binding]; metal-binding site 491916006980 Predicted secreted protein (DUF2259); Region: DUF2259; pfam10016 491916006981 adenylosuccinate lyase; Provisional; Region: PRK07492 491916006982 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 491916006983 tetramer interface [polypeptide binding]; other site 491916006984 active site 491916006985 Low affinity iron permease; Region: Iron_permease; pfam04120 491916006986 Predicted integral membrane protein [Function unknown]; Region: COG5473 491916006987 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 491916006988 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916006989 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 491916006990 PAS fold; Region: PAS_3; pfam08447 491916006991 putative active site [active] 491916006992 heme pocket [chemical binding]; other site 491916006993 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 491916006994 PAS fold; Region: PAS_3; pfam08447 491916006995 putative active site [active] 491916006996 heme pocket [chemical binding]; other site 491916006997 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916006998 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916006999 metal binding site [ion binding]; metal-binding site 491916007000 active site 491916007001 I-site; other site 491916007002 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 491916007003 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 491916007004 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 491916007005 ATP binding site [chemical binding]; other site 491916007006 active site 491916007007 substrate binding site [chemical binding]; other site 491916007008 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 491916007009 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 491916007010 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 491916007011 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 491916007012 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 491916007013 putative active site [active] 491916007014 catalytic triad [active] 491916007015 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 491916007016 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 491916007017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916007018 DNA-binding site [nucleotide binding]; DNA binding site 491916007019 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 491916007020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916007021 homodimer interface [polypeptide binding]; other site 491916007022 catalytic residue [active] 491916007023 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 491916007024 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 491916007025 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 491916007026 dimerization interface [polypeptide binding]; other site 491916007027 ATP binding site [chemical binding]; other site 491916007028 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 491916007029 dimerization interface [polypeptide binding]; other site 491916007030 ATP binding site [chemical binding]; other site 491916007031 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 491916007032 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 491916007033 putative GSH binding site [chemical binding]; other site 491916007034 catalytic residues [active] 491916007035 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 491916007036 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 491916007037 putative substrate translocation pore; other site 491916007038 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 491916007039 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 491916007040 putative substrate translocation pore; other site 491916007041 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491916007042 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916007043 Coenzyme A binding pocket [chemical binding]; other site 491916007044 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 491916007045 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916007046 active site 491916007047 putative lithium-binding site [ion binding]; other site 491916007048 substrate binding site [chemical binding]; other site 491916007049 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 491916007050 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916007051 active site 491916007052 putative lithium-binding site [ion binding]; other site 491916007053 substrate binding site [chemical binding]; other site 491916007054 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 491916007055 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 491916007056 Ligand Binding Site [chemical binding]; other site 491916007057 TIGR00269 family protein; Region: TIGR00269 491916007058 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 491916007059 glutaminase; Provisional; Region: PRK00971 491916007060 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 491916007061 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 491916007062 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 491916007063 RNA binding surface [nucleotide binding]; other site 491916007064 Domain of unknown function DUF87; Region: DUF87; pfam01935 491916007065 HerA helicase [Replication, recombination, and repair]; Region: COG0433 491916007066 glutamate racemase; Provisional; Region: PRK00865 491916007067 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 491916007068 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 491916007069 Predicted membrane protein [Function unknown]; Region: COG1289 491916007070 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 491916007071 isocitrate dehydrogenase; Validated; Region: PRK08299 491916007072 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916007073 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 491916007074 putative C-terminal domain interface [polypeptide binding]; other site 491916007075 putative GSH binding site (G-site) [chemical binding]; other site 491916007076 putative dimer interface [polypeptide binding]; other site 491916007077 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 491916007078 dimer interface [polypeptide binding]; other site 491916007079 N-terminal domain interface [polypeptide binding]; other site 491916007080 putative substrate binding pocket (H-site) [chemical binding]; other site 491916007081 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916007082 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916007083 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 491916007084 ypch00800 491916007085 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 491916007086 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 491916007087 motif 1; other site 491916007088 active site 491916007089 motif 2; other site 491916007090 motif 3; other site 491916007091 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 491916007092 recombinase A; Provisional; Region: recA; PRK09354 491916007093 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 491916007094 hexamer interface [polypeptide binding]; other site 491916007095 Walker A motif; other site 491916007096 ATP binding site [chemical binding]; other site 491916007097 Walker B motif; other site 491916007098 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916007099 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 491916007100 substrate binding site [chemical binding]; other site 491916007101 ATP binding site [chemical binding]; other site 491916007102 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 491916007103 PAS domain S-box; Region: sensory_box; TIGR00229 491916007104 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 491916007105 putative active site [active] 491916007106 heme pocket [chemical binding]; other site 491916007107 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; cl02459 491916007108 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916007109 putative active site [active] 491916007110 heme pocket [chemical binding]; other site 491916007111 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 491916007112 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 491916007113 dimer interface [polypeptide binding]; other site 491916007114 phosphorylation site [posttranslational modification] 491916007115 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 491916007116 ATP binding site [chemical binding]; other site 491916007117 Mg2+ binding site [ion binding]; other site 491916007118 G-X-G motif; other site 491916007119 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 491916007120 Response regulator receiver domain; Region: Response_reg; pfam00072 491916007121 active site 491916007122 phosphorylation site [posttranslational modification] 491916007123 intermolecular recognition site; other site 491916007124 dimerization interface [polypeptide binding]; other site 491916007125 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 491916007126 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 491916007127 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 491916007128 catalytic core [active] 491916007129 YcjX-like family, DUF463; Region: DUF463; pfam04317 491916007130 Predicted membrane protein [Function unknown]; Region: COG3768 491916007131 Domain of unknown function (DUF697); Region: DUF697; cl12064 491916007132 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 491916007133 catalytic center binding site [active] 491916007134 ATP binding site [chemical binding]; other site 491916007135 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 491916007136 homooctamer interface [polypeptide binding]; other site 491916007137 active site 491916007138 dihydropteroate synthase; Region: DHPS; TIGR01496 491916007139 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 491916007140 substrate binding pocket [chemical binding]; other site 491916007141 dimer interface [polypeptide binding]; other site 491916007142 inhibitor binding site; inhibition site 491916007143 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 491916007144 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 491916007145 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 491916007146 catalytic loop [active] 491916007147 iron binding site [ion binding]; other site 491916007148 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 491916007149 putative binding surface; other site 491916007150 active site 491916007151 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 491916007152 Isochorismatase family; Region: Isochorismatase; pfam00857 491916007153 catalytic triad [active] 491916007154 conserved cis-peptide bond; other site 491916007155 Predicted kinase [General function prediction only]; Region: COG0645 491916007156 AAA domain; Region: AAA_17; pfam13207 491916007157 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 491916007158 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491916007159 GAF domain; Region: GAF; pfam01590 491916007160 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 491916007161 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916007162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916007163 metal binding site [ion binding]; metal-binding site 491916007164 active site 491916007165 I-site; other site 491916007166 Protein of unknown function (DUF330); Region: DUF330; cl01135 491916007167 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 491916007168 mce related protein; Region: MCE; pfam02470 491916007169 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 491916007170 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 491916007171 Walker A/P-loop; other site 491916007172 ATP binding site [chemical binding]; other site 491916007173 Q-loop/lid; other site 491916007174 ABC transporter signature motif; other site 491916007175 Walker B; other site 491916007176 D-loop; other site 491916007177 H-loop/switch region; other site 491916007178 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 491916007179 anti sigma factor interaction site; other site 491916007180 regulatory phosphorylation site [posttranslational modification]; other site 491916007181 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 491916007182 Permease; Region: Permease; pfam02405 491916007183 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 491916007184 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 491916007185 active site 491916007186 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 491916007187 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 491916007188 putative substrate translocation pore; other site 491916007189 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491916007190 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 491916007191 putative active site [active] 491916007192 putative metal binding site [ion binding]; other site 491916007193 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 491916007194 catalytic core [active] 491916007195 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 491916007196 FAD binding domain; Region: FAD_binding_4; pfam01565 491916007197 Berberine and berberine like; Region: BBE; pfam08031 491916007198 malic enzyme; Reviewed; Region: PRK12862 491916007199 Malic enzyme, N-terminal domain; Region: malic; pfam00390 491916007200 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 491916007201 putative NAD(P) binding site [chemical binding]; other site 491916007202 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 491916007203 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 491916007204 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 491916007205 putative FMN binding site [chemical binding]; other site 491916007206 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 491916007207 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 491916007208 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 491916007209 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491916007210 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491916007211 NAD synthetase; Provisional; Region: PRK13981 491916007212 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 491916007213 multimer interface [polypeptide binding]; other site 491916007214 active site 491916007215 catalytic triad [active] 491916007216 protein interface 1 [polypeptide binding]; other site 491916007217 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 491916007218 homodimer interface [polypeptide binding]; other site 491916007219 NAD binding pocket [chemical binding]; other site 491916007220 ATP binding pocket [chemical binding]; other site 491916007221 Mg binding site [ion binding]; other site 491916007222 active-site loop [active] 491916007223 Predicted membrane protein [Function unknown]; Region: COG4420 491916007224 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916007225 ypch00817 491916007226 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 491916007227 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 491916007228 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 491916007229 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; cl00057 491916007230 metal ion-dependent adhesion site (MIDAS); other site 491916007231 glutathione reductase; Validated; Region: PRK06116 491916007232 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916007233 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916007234 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491916007235 acylphosphatase; Provisional; Region: PRK14425 491916007236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 491916007237 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 491916007238 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491916007239 active site 491916007240 dimer interface [polypeptide binding]; other site 491916007241 phosphoglycolate phosphatase; Provisional; Region: PRK13222 491916007242 Acid Phosphatase; Region: Acid_PPase; cl17256 491916007243 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 491916007244 motif II; other site 491916007245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 491916007246 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916007247 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916007248 fumarate hydratase; Reviewed; Region: fumC; PRK00485 491916007249 Class II fumarases; Region: Fumarase_classII; cd01362 491916007250 active site 491916007251 tetramer interface [polypeptide binding]; other site 491916007252 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916007253 VCBS repeat; Region: VCBS_repeat; TIGR01965 491916007254 fumarate hydratase; Provisional; Region: PRK15389 491916007255 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 491916007256 Fumarase C-terminus; Region: Fumerase_C; pfam05683 491916007257 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916007258 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916007259 metal binding site [ion binding]; metal-binding site 491916007260 active site 491916007261 I-site; other site 491916007262 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 491916007263 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916007264 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916007265 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916007266 MarR family; Region: MarR_2; pfam12802 491916007267 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 491916007268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 491916007269 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 491916007270 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 491916007271 FeS/SAM binding site; other site 491916007272 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 491916007273 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916007274 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 491916007275 S-adenosylmethionine binding site [chemical binding]; other site 491916007276 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 491916007277 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 491916007278 putative ligand binding residues [chemical binding]; other site 491916007279 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491916007280 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 491916007281 ABC-ATPase subunit interface; other site 491916007282 dimer interface [polypeptide binding]; other site 491916007283 putative PBP binding regions; other site 491916007284 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 491916007285 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491916007286 Walker A/P-loop; other site 491916007287 ATP binding site [chemical binding]; other site 491916007288 Q-loop/lid; other site 491916007289 ABC transporter signature motif; other site 491916007290 Walker B; other site 491916007291 D-loop; other site 491916007292 H-loop/switch region; other site 491916007293 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491916007294 MarR family; Region: MarR_2; pfam12802 491916007295 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491916007296 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 491916007297 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 491916007298 N- and C-terminal domain interface [polypeptide binding]; other site 491916007299 active site 491916007300 MgATP binding site [chemical binding]; other site 491916007301 catalytic site [active] 491916007302 metal binding site [ion binding]; metal-binding site 491916007303 putative homotetramer interface [polypeptide binding]; other site 491916007304 putative homodimer interface [polypeptide binding]; other site 491916007305 glycerol binding site [chemical binding]; other site 491916007306 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 491916007307 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 491916007308 PYR/PP interface [polypeptide binding]; other site 491916007309 dimer interface [polypeptide binding]; other site 491916007310 TPP binding site [chemical binding]; other site 491916007311 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491916007312 transketolase; Reviewed; Region: PRK05899 491916007313 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 491916007314 TPP-binding site [chemical binding]; other site 491916007315 dimer interface [polypeptide binding]; other site 491916007316 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916007317 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 491916007318 TM-ABC transporter signature motif; other site 491916007319 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916007320 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 491916007321 ligand binding site [chemical binding]; other site 491916007322 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916007323 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916007324 Walker A/P-loop; other site 491916007325 ATP binding site [chemical binding]; other site 491916007326 Q-loop/lid; other site 491916007327 ABC transporter signature motif; other site 491916007328 Walker B; other site 491916007329 D-loop; other site 491916007330 H-loop/switch region; other site 491916007331 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916007332 short chain dehydrogenase; Provisional; Region: PRK06114 491916007333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916007334 NAD(P) binding site [chemical binding]; other site 491916007335 active site 491916007336 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916007337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916007338 NAD(P) binding site [chemical binding]; other site 491916007339 active site 491916007340 short chain dehydrogenase; Provisional; Region: PRK07478 491916007341 classical (c) SDRs; Region: SDR_c; cd05233 491916007342 NAD(P) binding site [chemical binding]; other site 491916007343 active site 491916007344 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 491916007345 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 491916007346 GTP binding site; other site 491916007347 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 491916007348 Walker A motif; other site 491916007349 PAS fold; Region: PAS_3; pfam08447 491916007350 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 491916007351 putative active site [active] 491916007352 heme pocket [chemical binding]; other site 491916007353 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 491916007354 ATP binding site [chemical binding]; other site 491916007355 G-X-G motif; other site 491916007356 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916007357 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 491916007358 active site 491916007359 phosphorylation site [posttranslational modification] 491916007360 intermolecular recognition site; other site 491916007361 dimerization interface [polypeptide binding]; other site 491916007362 circadian clock protein KaiC; Reviewed; Region: PRK09302 491916007363 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 491916007364 Walker A motif; other site 491916007365 ATP binding site [chemical binding]; other site 491916007366 Walker B motif; other site 491916007367 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 491916007368 Walker A motif; other site 491916007369 ATP binding site [chemical binding]; other site 491916007370 Walker B motif; other site 491916007371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916007372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916007373 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 491916007374 putative effector binding pocket; other site 491916007375 putative dimerization interface [polypeptide binding]; other site 491916007376 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491916007377 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 491916007378 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916007379 active site 491916007380 catalytic tetrad [active] 491916007381 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491916007382 maleylacetoacetate isomerase; Region: maiA; TIGR01262 491916007383 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 491916007384 N-terminal domain interface [polypeptide binding]; other site 491916007385 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 491916007386 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 491916007387 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 491916007388 dimer interface [polypeptide binding]; other site 491916007389 phosphorylation site [posttranslational modification] 491916007390 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 491916007391 ATP binding site [chemical binding]; other site 491916007392 Mg2+ binding site [ion binding]; other site 491916007393 G-X-G motif; other site 491916007394 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 491916007395 osmolarity response regulator; Provisional; Region: ompR; PRK09468 491916007396 active site 491916007397 phosphorylation site [posttranslational modification] 491916007398 intermolecular recognition site; other site 491916007399 dimerization interface [polypeptide binding]; other site 491916007400 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 491916007401 DNA binding site [nucleotide binding] 491916007402 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916007403 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 491916007404 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 491916007405 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 491916007406 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491916007407 catalytic residues [active] 491916007408 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916007409 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 491916007410 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491916007411 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916007412 ligand binding site [chemical binding]; other site 491916007413 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 491916007414 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916007415 substrate binding pocket [chemical binding]; other site 491916007416 membrane-bound complex binding site; other site 491916007417 hinge residues; other site 491916007418 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916007419 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 491916007420 dimer interface [polypeptide binding]; other site 491916007421 conserved gate region; other site 491916007422 putative PBP binding loops; other site 491916007423 ABC-ATPase subunit interface; other site 491916007424 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916007425 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 491916007426 dimer interface [polypeptide binding]; other site 491916007427 conserved gate region; other site 491916007428 putative PBP binding loops; other site 491916007429 ABC-ATPase subunit interface; other site 491916007430 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 491916007431 Predicted integral membrane protein [Function unknown]; Region: COG5530 491916007432 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 491916007433 Tetratricopeptide repeat; Region: TPR_1; pfam00515 491916007434 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 491916007435 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916007436 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 491916007437 C-terminal domain interface [polypeptide binding]; other site 491916007438 GSH binding site (G-site) [chemical binding]; other site 491916007439 dimer interface [polypeptide binding]; other site 491916007440 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 491916007441 N-terminal domain interface [polypeptide binding]; other site 491916007442 dimer interface [polypeptide binding]; other site 491916007443 substrate binding pocket (H-site) [chemical binding]; other site 491916007444 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 491916007445 dimerization interface [polypeptide binding]; other site 491916007446 putative DNA binding site [nucleotide binding]; other site 491916007447 putative Zn2+ binding site [ion binding]; other site 491916007448 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 491916007449 putative hydrophobic ligand binding site [chemical binding]; other site 491916007450 Uncharacterized conserved protein [Function unknown]; Region: COG5649 491916007451 Uncharacterized conserved protein [Function unknown]; Region: COG5649 491916007452 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 491916007453 putative hydrophobic ligand binding site [chemical binding]; other site 491916007454 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 491916007455 dimerization interface [polypeptide binding]; other site 491916007456 putative DNA binding site [nucleotide binding]; other site 491916007457 putative Zn2+ binding site [ion binding]; other site 491916007458 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 491916007459 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491916007460 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 491916007461 A new structural DNA glycosylase; Region: AlkD_like; cd06561 491916007462 active site 491916007463 FOG: CBS domain [General function prediction only]; Region: COG0517 491916007464 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 491916007465 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 491916007466 Porin subfamily; Region: Porin_2; pfam02530 491916007467 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916007468 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 491916007469 putative DNA binding site [nucleotide binding]; other site 491916007470 putative Zn2+ binding site [ion binding]; other site 491916007471 AsnC family; Region: AsnC_trans_reg; pfam01037 491916007472 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 491916007473 putative uracil binding site [chemical binding]; other site 491916007474 putative active site [active] 491916007475 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 491916007476 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 491916007477 Catalytic site; other site 491916007478 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916007479 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 491916007480 dimer interface [polypeptide binding]; other site 491916007481 phosphorylation site [posttranslational modification] 491916007482 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 491916007483 ATP binding site [chemical binding]; other site 491916007484 Mg2+ binding site [ion binding]; other site 491916007485 G-X-G motif; other site 491916007486 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 491916007487 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 491916007488 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 491916007489 putative dimer interface [polypeptide binding]; other site 491916007490 active site pocket [active] 491916007491 putative cataytic base [active] 491916007492 cobalamin synthase; Reviewed; Region: cobS; PRK00235 491916007493 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 491916007494 Predicted aspartyl protease [General function prediction only]; Region: COG3577 491916007495 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 491916007496 catalytic motif [active] 491916007497 Catalytic residue [active] 491916007498 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 491916007499 putative substrate translocation pore; other site 491916007500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916007501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916007502 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 491916007503 dimerization interface [polypeptide binding]; other site 491916007504 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 491916007505 short chain dehydrogenase; Provisional; Region: PRK07041 491916007506 putative NAD(P) binding site [chemical binding]; other site 491916007507 homodimer interface [polypeptide binding]; other site 491916007508 ABC-2 type transporter; Region: ABC2_membrane; cl17235 491916007509 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 491916007510 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491916007511 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 491916007512 Walker A/P-loop; other site 491916007513 ATP binding site [chemical binding]; other site 491916007514 Q-loop/lid; other site 491916007515 ABC transporter signature motif; other site 491916007516 Walker B; other site 491916007517 D-loop; other site 491916007518 H-loop/switch region; other site 491916007519 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491916007520 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 491916007521 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 491916007522 inhibitor binding site; inhibition site 491916007523 active site 491916007524 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 491916007525 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916007526 active site 491916007527 catalytic tetrad [active] 491916007528 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916007529 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916007530 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916007531 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 491916007532 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 491916007533 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 491916007534 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916007535 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916007536 Walker A/P-loop; other site 491916007537 ATP binding site [chemical binding]; other site 491916007538 Q-loop/lid; other site 491916007539 ABC transporter signature motif; other site 491916007540 Walker B; other site 491916007541 D-loop; other site 491916007542 H-loop/switch region; other site 491916007543 TOBE domain; Region: TOBE_2; pfam08402 491916007544 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916007545 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 491916007546 dimer interface [polypeptide binding]; other site 491916007547 conserved gate region; other site 491916007548 putative PBP binding loops; other site 491916007549 ABC-ATPase subunit interface; other site 491916007550 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 491916007551 dimer interface [polypeptide binding]; other site 491916007552 conserved gate region; other site 491916007553 putative PBP binding loops; other site 491916007554 ABC-ATPase subunit interface; other site 491916007555 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916007556 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916007557 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916007558 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916007559 DNA binding site [nucleotide binding] 491916007560 domain linker motif; other site 491916007561 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 491916007562 ligand binding site [chemical binding]; other site 491916007563 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 491916007564 putative active site [active] 491916007565 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 491916007566 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 491916007567 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 491916007568 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 491916007569 S-adenosylmethionine binding site [chemical binding]; other site 491916007570 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 491916007571 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491916007572 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 491916007573 Helix-turn-helix domain; Region: HTH_18; pfam12833 491916007574 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 491916007575 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916007576 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 491916007577 PAS fold; Region: PAS_4; pfam08448 491916007578 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 491916007579 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 491916007580 putative acyl-acceptor binding pocket; other site 491916007581 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 491916007582 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 491916007583 putative NAD(P) binding site [chemical binding]; other site 491916007584 structural Zn binding site [ion binding]; other site 491916007585 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 491916007586 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 491916007587 dimer interface [polypeptide binding]; other site 491916007588 active site 491916007589 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 491916007590 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 491916007591 active site 491916007592 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 491916007593 active site 2 [active] 491916007594 active site 1 [active] 491916007595 acyl carrier protein; Provisional; Region: PRK06508 491916007596 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 491916007597 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916007598 ligand binding site [chemical binding]; other site 491916007599 flexible hinge region; other site 491916007600 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 491916007601 putative switch regulator; other site 491916007602 non-specific DNA interactions [nucleotide binding]; other site 491916007603 DNA binding site [nucleotide binding] 491916007604 sequence specific DNA binding site [nucleotide binding]; other site 491916007605 putative cAMP binding site [chemical binding]; other site 491916007606 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916007607 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 491916007608 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 491916007609 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 491916007610 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916007611 catalytic residue [active] 491916007612 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 491916007613 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 491916007614 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 491916007615 active site 491916007616 SAM binding site [chemical binding]; other site 491916007617 homodimer interface [polypeptide binding]; other site 491916007618 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 491916007619 active site 491916007620 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 491916007621 hypothetical protein; Provisional; Region: PRK10621 491916007622 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491916007623 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 491916007624 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 491916007625 Cobalamin biosynthesis protein CobN and related Mg-chelatases [Coenzyme metabolism]; Region: CobN; COG1429 491916007626 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 491916007627 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 491916007628 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 491916007629 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 491916007630 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 491916007631 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 491916007632 homotrimer interface [polypeptide binding]; other site 491916007633 Walker A motif; other site 491916007634 GTP binding site [chemical binding]; other site 491916007635 Walker B motif; other site 491916007636 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 491916007637 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 491916007638 Cl- selectivity filter; other site 491916007639 Cl- binding residues [ion binding]; other site 491916007640 pore gating glutamate residue; other site 491916007641 dimer interface [polypeptide binding]; other site 491916007642 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 491916007643 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916007644 cyclase homology domain; Region: CHD; cd07302 491916007645 nucleotidyl binding site; other site 491916007646 metal binding site [ion binding]; metal-binding site 491916007647 dimer interface [polypeptide binding]; other site 491916007648 cobyric acid synthase; Provisional; Region: PRK00784 491916007649 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 491916007650 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 491916007651 catalytic triad [active] 491916007652 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 491916007653 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 491916007654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916007655 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 491916007656 dimerization interface [polypeptide binding]; other site 491916007657 Lysine efflux permease [General function prediction only]; Region: COG1279 491916007658 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 491916007659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916007660 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 491916007661 dimerization interface [polypeptide binding]; other site 491916007662 transcription elongation factor regulatory protein; Validated; Region: PRK06342 491916007663 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 491916007664 MgtC family; Region: MgtC; pfam02308 491916007665 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 491916007666 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 491916007667 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 491916007668 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 491916007669 putative catalytic residues [active] 491916007670 Predicted amidohydrolase [General function prediction only]; Region: COG0388 491916007671 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 491916007672 active site 491916007673 catalytic triad [active] 491916007674 dimer interface [polypeptide binding]; other site 491916007675 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491916007676 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 491916007677 ATP binding site [chemical binding]; other site 491916007678 putative Mg++ binding site [ion binding]; other site 491916007679 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; cl17351 491916007680 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 491916007681 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 491916007682 conserved cys residue [active] 491916007683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916007684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916007685 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916007686 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 491916007687 active site 491916007688 phosphorylation site [posttranslational modification] 491916007689 intermolecular recognition site; other site 491916007690 dimerization interface [polypeptide binding]; other site 491916007691 Response regulator receiver domain; Region: Response_reg; pfam00072 491916007692 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 491916007693 active site 491916007694 phosphorylation site [posttranslational modification] 491916007695 intermolecular recognition site; other site 491916007696 dimerization interface [polypeptide binding]; other site 491916007697 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916007698 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916007699 metal binding site [ion binding]; metal-binding site 491916007700 active site 491916007701 I-site; other site 491916007702 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916007703 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 491916007704 active site 491916007705 phosphorylation site [posttranslational modification] 491916007706 intermolecular recognition site; other site 491916007707 dimerization interface [polypeptide binding]; other site 491916007708 Response regulator receiver domain; Region: Response_reg; pfam00072 491916007709 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 491916007710 active site 491916007711 phosphorylation site [posttranslational modification] 491916007712 intermolecular recognition site; other site 491916007713 dimerization interface [polypeptide binding]; other site 491916007714 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 491916007715 putative DNA binding site [nucleotide binding]; other site 491916007716 putative Zn2+ binding site [ion binding]; other site 491916007717 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 491916007718 Low molecular weight phosphatase family; Region: LMWPc; cl00105 491916007719 active site 491916007720 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 491916007721 amphipathic channel; other site 491916007722 Asn-Pro-Ala signature motifs; other site 491916007723 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 491916007724 ArsC family; Region: ArsC; pfam03960 491916007725 catalytic residues [active] 491916007726 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 491916007727 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491916007728 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 491916007729 Response regulator receiver domain; Region: Response_reg; pfam00072 491916007730 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 491916007731 active site 491916007732 phosphorylation site [posttranslational modification] 491916007733 intermolecular recognition site; other site 491916007734 dimerization interface [polypeptide binding]; other site 491916007735 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 491916007736 Histidine kinase; Region: HisKA_2; pfam07568 491916007737 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 491916007738 Mg2+ binding site [ion binding]; other site 491916007739 G-X-G motif; other site 491916007740 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 491916007741 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916007742 putative substrate translocation pore; other site 491916007743 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916007744 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916007745 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916007746 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 491916007747 dimer interface [polypeptide binding]; other site 491916007748 conserved gate region; other site 491916007749 putative PBP binding loops; other site 491916007750 ABC-ATPase subunit interface; other site 491916007751 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916007752 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 491916007753 dimer interface [polypeptide binding]; other site 491916007754 conserved gate region; other site 491916007755 putative PBP binding loops; other site 491916007756 ABC-ATPase subunit interface; other site 491916007757 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916007758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916007759 Walker A/P-loop; other site 491916007760 ATP binding site [chemical binding]; other site 491916007761 Q-loop/lid; other site 491916007762 ABC transporter signature motif; other site 491916007763 Walker B; other site 491916007764 D-loop; other site 491916007765 H-loop/switch region; other site 491916007766 TOBE domain; Region: TOBE_2; pfam08402 491916007767 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916007768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916007769 Walker A/P-loop; other site 491916007770 ATP binding site [chemical binding]; other site 491916007771 Q-loop/lid; other site 491916007772 ABC transporter signature motif; other site 491916007773 Walker B; other site 491916007774 D-loop; other site 491916007775 H-loop/switch region; other site 491916007776 TOBE domain; Region: TOBE_2; pfam08402 491916007777 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 491916007778 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 491916007779 DAK2 domain; Region: Dak2; pfam02734 491916007780 DAK2 domain; Region: Dak2; cl03685 491916007781 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 491916007782 active site 491916007783 active pocket/dimerization site; other site 491916007784 phosphorylation site [posttranslational modification] 491916007785 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 491916007786 dimerization domain swap beta strand [polypeptide binding]; other site 491916007787 regulatory protein interface [polypeptide binding]; other site 491916007788 active site 491916007789 regulatory phosphorylation site [posttranslational modification]; other site 491916007790 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 491916007791 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 491916007792 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 491916007793 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 491916007794 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 491916007795 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 491916007796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 491916007797 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 491916007798 Epoxide hydrolase N terminus; Region: EHN; pfam06441 491916007799 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916007800 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916007801 MarR family; Region: MarR; pfam01047 491916007802 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_23; cd04682 491916007803 nudix motif; other site 491916007804 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 491916007805 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 491916007806 CAP-Gly domain; Region: CAP_GLY; cl08315 491916007807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 491916007808 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 491916007809 Cache domain; Region: Cache_2; pfam08269 491916007810 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916007811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916007812 dimer interface [polypeptide binding]; other site 491916007813 putative CheW interface [polypeptide binding]; other site 491916007814 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 491916007815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 491916007816 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 491916007817 Protein of unknown function, DUF486; Region: DUF486; cl01236 491916007818 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 491916007819 S-adenosylmethionine binding site [chemical binding]; other site 491916007820 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 491916007821 NmrA-like family; Region: NmrA; pfam05368 491916007822 NADP binding site [chemical binding]; other site 491916007823 active site 491916007824 regulatory binding site [polypeptide binding]; other site 491916007825 LysR family transcriptional regulator; Provisional; Region: PRK14997 491916007826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916007827 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 491916007828 putative effector binding pocket; other site 491916007829 dimerization interface [polypeptide binding]; other site 491916007830 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916007831 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 491916007832 active site 491916007833 phosphorylation site [posttranslational modification] 491916007834 intermolecular recognition site; other site 491916007835 dimerization interface [polypeptide binding]; other site 491916007836 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 491916007837 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 491916007838 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916007839 cyclase homology domain; Region: CHD; cd07302 491916007840 nucleotidyl binding site; other site 491916007841 metal binding site [ion binding]; metal-binding site 491916007842 dimer interface [polypeptide binding]; other site 491916007843 Predicted membrane protein [Function unknown]; Region: COG3152 491916007844 Rhomboid family; Region: Rhomboid; pfam01694 491916007845 excinuclease ABC subunit B; Provisional; Region: PRK05298 491916007846 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 491916007847 ATP binding site [chemical binding]; other site 491916007848 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 491916007849 nucleotide binding region [chemical binding]; other site 491916007850 ATP-binding site [chemical binding]; other site 491916007851 Ultra-violet resistance protein B; Region: UvrB; pfam12344 491916007852 UvrB/uvrC motif; Region: UVR; pfam02151 491916007853 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916007854 Coenzyme A binding pocket [chemical binding]; other site 491916007855 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 491916007856 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 491916007857 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 491916007858 DNA-binding site [nucleotide binding]; DNA binding site 491916007859 RNA-binding motif; other site 491916007860 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 491916007861 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 491916007862 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 491916007863 FMN binding site [chemical binding]; other site 491916007864 active site 491916007865 catalytic residues [active] 491916007866 substrate binding site [chemical binding]; other site 491916007867 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916007868 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 491916007869 protein binding site [polypeptide binding]; other site 491916007870 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916007871 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916007872 yich00022; insertion sequence:Integrase, catalytic core 491916007873 yich00023; insertion sequence:Transposase IS3/IS911 491916007874 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491916007875 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 491916007876 HAMP domain; Region: HAMP; pfam00672 491916007877 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 491916007878 dimer interface [polypeptide binding]; other site 491916007879 phosphorylation site [posttranslational modification] 491916007880 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 491916007881 Mg2+ binding site [ion binding]; other site 491916007882 G-X-G motif; other site 491916007883 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916007884 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 491916007885 active site 491916007886 phosphorylation site [posttranslational modification] 491916007887 intermolecular recognition site; other site 491916007888 dimerization interface [polypeptide binding]; other site 491916007889 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 491916007890 DNA binding site [nucleotide binding] 491916007891 Predicted transcriptional regulators [Transcription]; Region: COG1733 491916007892 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491916007893 RibD C-terminal domain; Region: RibD_C; cl17279 491916007894 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916007895 cyclase homology domain; Region: CHD; cd07302 491916007896 nucleotidyl binding site; other site 491916007897 metal binding site [ion binding]; metal-binding site 491916007898 dimer interface [polypeptide binding]; other site 491916007899 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916007900 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916007901 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 491916007902 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 491916007903 S-adenosylmethionine binding site [chemical binding]; other site 491916007904 Protein of unknown function (DUF808); Region: DUF808; cl01002 491916007905 Predicted transcriptional regulators [Transcription]; Region: COG1733 491916007906 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 491916007907 dimerization interface [polypeptide binding]; other site 491916007908 putative DNA binding site [nucleotide binding]; other site 491916007909 putative Zn2+ binding site [ion binding]; other site 491916007910 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 491916007911 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 491916007912 NADP binding site [chemical binding]; other site 491916007913 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916007914 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 491916007915 putative DNA binding site [nucleotide binding]; other site 491916007916 putative Zn2+ binding site [ion binding]; other site 491916007917 AsnC family; Region: AsnC_trans_reg; pfam01037 491916007918 argininosuccinate synthase; Provisional; Region: PRK13820 491916007919 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 491916007920 ANP binding site [chemical binding]; other site 491916007921 Substrate Binding Site II [chemical binding]; other site 491916007922 Substrate Binding Site I [chemical binding]; other site 491916007923 Predicted periplasmic protein [Function unknown]; Region: COG3698 491916007924 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 491916007925 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 491916007926 diiron binding motif [ion binding]; other site 491916007927 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916007928 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916007929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916007930 Walker A/P-loop; other site 491916007931 ATP binding site [chemical binding]; other site 491916007932 Q-loop/lid; other site 491916007933 ABC transporter signature motif; other site 491916007934 Walker B; other site 491916007935 D-loop; other site 491916007936 H-loop/switch region; other site 491916007937 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916007938 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 491916007939 dimer interface [polypeptide binding]; other site 491916007940 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 491916007941 dihydrodipicolinate reductase; Provisional; Region: PRK00048 491916007942 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 491916007943 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 491916007944 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 491916007945 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 491916007946 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491916007947 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916007948 Coenzyme A binding pocket [chemical binding]; other site 491916007949 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491916007950 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916007951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916007952 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 491916007953 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 491916007954 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916007955 catalytic residue [active] 491916007956 TIGR02594 family protein; Region: TIGR02594 491916007957 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 491916007958 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 491916007959 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 491916007960 putative active site [active] 491916007961 Right handed beta helix region; Region: Beta_helix; pfam13229 491916007962 Right handed beta helix region; Region: Beta_helix; pfam13229 491916007963 Hemerythrin-like domain of FBXL5-like proteins; Region: Hr_FBXL5; cd12109 491916007964 Fe binding site [ion binding]; other site 491916007965 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 491916007966 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 491916007967 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 491916007968 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491916007969 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491916007970 FtsX-like permease family; Region: FtsX; pfam02687 491916007971 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491916007972 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491916007973 Walker A/P-loop; other site 491916007974 ATP binding site [chemical binding]; other site 491916007975 Q-loop/lid; other site 491916007976 ABC transporter signature motif; other site 491916007977 Walker B; other site 491916007978 D-loop; other site 491916007979 H-loop/switch region; other site 491916007980 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 491916007981 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 491916007982 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916007983 Helix-turn-helix domain; Region: HTH_18; pfam12833 491916007984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916007985 Dienelactone hydrolase family; Region: DLH; pfam01738 491916007986 Predicted small integral membrane protein [Function unknown]; Region: COG5605 491916007987 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 491916007988 Subunit I/III interface [polypeptide binding]; other site 491916007989 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 491916007990 Subunit I/III interface [polypeptide binding]; other site 491916007991 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 491916007992 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 491916007993 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 491916007994 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 491916007995 Cytochrome c2 [Energy production and conversion]; Region: COG3474 491916007996 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 491916007997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 491916007998 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 491916007999 cell division protein FtsZ; Validated; Region: PRK09330 491916008000 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 491916008001 nucleotide binding site [chemical binding]; other site 491916008002 SulA interaction site; other site 491916008003 VCBS repeat; Region: VCBS_repeat; TIGR01965 491916008004 Stathmin family; Region: Stathmin; pfam00836 491916008005 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916008006 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 491916008007 salt bridge; other site 491916008008 non-specific DNA binding site [nucleotide binding]; other site 491916008009 sequence-specific DNA binding site [nucleotide binding]; other site 491916008010 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 491916008011 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916008012 putative NAD(P) binding site [chemical binding]; other site 491916008013 yhch00901 491916008014 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 491916008015 putative hydrophobic ligand binding site [chemical binding]; other site 491916008016 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 491916008017 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 491916008018 potential catalytic triad [active] 491916008019 conserved cys residue [active] 491916008020 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916008021 DNA binding site [nucleotide binding] 491916008022 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916008023 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 491916008024 putative ligand binding site [chemical binding]; other site 491916008025 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 491916008026 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 491916008027 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 491916008028 [2Fe-2S] cluster binding site [ion binding]; other site 491916008029 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 491916008030 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916008031 putative ligand binding site [chemical binding]; other site 491916008032 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 491916008033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916008034 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916008035 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916008036 metal binding site [ion binding]; metal-binding site 491916008037 active site 491916008038 I-site; other site 491916008039 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 491916008040 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 491916008041 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 491916008042 S-adenosylmethionine binding site [chemical binding]; other site 491916008043 Cache domain; Region: Cache_1; pfam02743 491916008044 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916008045 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 491916008046 dimerization interface [polypeptide binding]; other site 491916008047 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 491916008048 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 491916008049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 491916008050 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 491916008051 anti sigma factor interaction site; other site 491916008052 regulatory phosphorylation site [posttranslational modification]; other site 491916008053 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916008054 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 491916008055 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 491916008056 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 491916008057 PAS domain; Region: PAS_9; pfam13426 491916008058 putative active site [active] 491916008059 heme pocket [chemical binding]; other site 491916008060 PAS fold; Region: PAS_7; pfam12860 491916008061 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916008062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916008063 metal binding site [ion binding]; metal-binding site 491916008064 active site 491916008065 I-site; other site 491916008066 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 491916008067 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916008068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916008069 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 491916008070 putative effector binding pocket; other site 491916008071 putative dimerization interface [polypeptide binding]; other site 491916008072 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 491916008073 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491916008074 catalytic Zn binding site [ion binding]; other site 491916008075 NAD(P) binding site [chemical binding]; other site 491916008076 structural Zn binding site [ion binding]; other site 491916008077 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491916008078 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 491916008079 putative substrate translocation pore; other site 491916008080 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916008081 cyclase homology domain; Region: CHD; cd07302 491916008082 nucleotidyl binding site; other site 491916008083 metal binding site [ion binding]; metal-binding site 491916008084 dimer interface [polypeptide binding]; other site 491916008085 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916008086 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 491916008087 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 491916008088 TPR motif; other site 491916008089 binding surface 491916008090 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 491916008091 TPR motif; other site 491916008092 binding surface 491916008093 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 491916008094 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 491916008095 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 491916008096 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 491916008097 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 491916008098 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 491916008099 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 491916008100 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916008101 Walker A/P-loop; other site 491916008102 ATP binding site [chemical binding]; other site 491916008103 Q-loop/lid; other site 491916008104 ABC transporter signature motif; other site 491916008105 Walker B; other site 491916008106 D-loop; other site 491916008107 H-loop/switch region; other site 491916008108 TOBE domain; Region: TOBE_2; pfam08402 491916008109 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916008110 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 491916008111 dimer interface [polypeptide binding]; other site 491916008112 conserved gate region; other site 491916008113 putative PBP binding loops; other site 491916008114 ABC-ATPase subunit interface; other site 491916008115 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 491916008116 dimer interface [polypeptide binding]; other site 491916008117 conserved gate region; other site 491916008118 putative PBP binding loops; other site 491916008119 ABC-ATPase subunit interface; other site 491916008120 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916008121 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916008122 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491916008123 nucleotide binding site [chemical binding]; other site 491916008124 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 491916008125 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916008126 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 491916008127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916008128 DNA-binding site [nucleotide binding]; DNA binding site 491916008129 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 491916008130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916008131 homodimer interface [polypeptide binding]; other site 491916008132 catalytic residue [active] 491916008133 Response regulator receiver domain; Region: Response_reg; pfam00072 491916008134 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 491916008135 active site 491916008136 phosphorylation site [posttranslational modification] 491916008137 intermolecular recognition site; other site 491916008138 dimerization interface [polypeptide binding]; other site 491916008139 CHASE4 domain; Region: CHASE4; pfam05228 491916008140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916008141 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 491916008142 dimer interface [polypeptide binding]; other site 491916008143 phosphorylation site [posttranslational modification] 491916008144 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 491916008145 ATP binding site [chemical binding]; other site 491916008146 Mg2+ binding site [ion binding]; other site 491916008147 G-X-G motif; other site 491916008148 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491916008149 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916008150 Coenzyme A binding pocket [chemical binding]; other site 491916008151 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 491916008152 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; cl17355 491916008153 DNA binding site [nucleotide binding] 491916008154 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 491916008155 replicative DNA helicase; Provisional; Region: PRK05973 491916008156 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 491916008157 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 491916008158 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 491916008159 LysR family transcriptional regulator; Provisional; Region: PRK14997 491916008160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916008161 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 491916008162 putative effector binding pocket; other site 491916008163 dimerization interface [polypeptide binding]; other site 491916008164 H+ Antiporter protein; Region: 2A0121; TIGR00900 491916008165 H+ Antiporter protein; Region: 2A0121; TIGR00900 491916008166 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 491916008167 dimerization interface [polypeptide binding]; other site 491916008168 putative DNA binding site [nucleotide binding]; other site 491916008169 putative Zn2+ binding site [ion binding]; other site 491916008170 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491916008171 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 491916008172 S-adenosylmethionine binding site [chemical binding]; other site 491916008173 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 491916008174 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491916008175 Walker A/P-loop; other site 491916008176 ATP binding site [chemical binding]; other site 491916008177 Q-loop/lid; other site 491916008178 ABC transporter signature motif; other site 491916008179 Walker B; other site 491916008180 D-loop; other site 491916008181 H-loop/switch region; other site 491916008182 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491916008183 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 491916008184 ABC-ATPase subunit interface; other site 491916008185 dimer interface [polypeptide binding]; other site 491916008186 putative PBP binding regions; other site 491916008187 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491916008188 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 491916008189 ABC-ATPase subunit interface; other site 491916008190 dimer interface [polypeptide binding]; other site 491916008191 putative PBP binding regions; other site 491916008192 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 491916008193 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 491916008194 intersubunit interface [polypeptide binding]; other site 491916008195 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916008196 cyclase homology domain; Region: CHD; cd07302 491916008197 nucleotidyl binding site; other site 491916008198 metal binding site [ion binding]; metal-binding site 491916008199 dimer interface [polypeptide binding]; other site 491916008200 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 491916008201 putative hydrophobic ligand binding site [chemical binding]; other site 491916008202 riboflavin synthase subunit beta; Provisional; Region: PRK12419 491916008203 active site 491916008204 homopentamer interface [polypeptide binding]; other site 491916008205 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 491916008206 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916008207 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 491916008208 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916008209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916008210 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 491916008211 putative effector binding pocket; other site 491916008212 dimerization interface [polypeptide binding]; other site 491916008213 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916008214 classical (c) SDRs; Region: SDR_c; cd05233 491916008215 NAD(P) binding site [chemical binding]; other site 491916008216 active site 491916008217 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 491916008218 homotrimer interaction site [polypeptide binding]; other site 491916008219 putative active site [active] 491916008220 FecR protein; Region: FecR; pfam04773 491916008221 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 491916008222 TPR motif; other site 491916008223 binding surface 491916008224 TPR repeat; Region: TPR_11; pfam13414 491916008225 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 491916008226 binding surface 491916008227 TPR repeat; Region: TPR_11; pfam13414 491916008228 TPR motif; other site 491916008229 TPR repeat; Region: TPR_11; pfam13414 491916008230 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 491916008231 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 491916008232 CHASE2 domain; Region: CHASE2; pfam05226 491916008233 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916008234 cyclase homology domain; Region: CHD; cd07302 491916008235 nucleotidyl binding site; other site 491916008236 metal binding site [ion binding]; metal-binding site 491916008237 dimer interface [polypeptide binding]; other site 491916008238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916008239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916008240 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916008241 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 491916008242 putative NAD(P) binding site [chemical binding]; other site 491916008243 active site 491916008244 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 491916008245 active site 491916008246 NTP binding site [chemical binding]; other site 491916008247 metal binding triad [ion binding]; metal-binding site 491916008248 antibiotic binding site [chemical binding]; other site 491916008249 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 491916008250 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491916008251 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 491916008252 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 491916008253 trimer interface [polypeptide binding]; other site 491916008254 putative metal binding site [ion binding]; other site 491916008255 Phospholipid methyltransferase; Region: PEMT; cl17370 491916008256 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 491916008257 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491916008258 metal binding site 2 [ion binding]; metal-binding site 491916008259 putative DNA binding helix; other site 491916008260 metal binding site 1 [ion binding]; metal-binding site 491916008261 dimer interface [polypeptide binding]; other site 491916008262 structural Zn2+ binding site [ion binding]; other site 491916008263 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 491916008264 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 491916008265 ABC-ATPase subunit interface; other site 491916008266 dimer interface [polypeptide binding]; other site 491916008267 putative PBP binding regions; other site 491916008268 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 491916008269 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 491916008270 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 491916008271 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 491916008272 metal binding site [ion binding]; metal-binding site 491916008273 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 491916008274 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 491916008275 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 491916008276 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 491916008277 yich00024; insertion sequence:Transposase, IS4-like 491916008278 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 491916008279 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 491916008280 Chromate transporter; Region: Chromate_transp; pfam02417 491916008281 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 491916008282 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916008283 active site 491916008284 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 491916008285 Domain of unknown function DUF21; Region: DUF21; pfam01595 491916008286 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 491916008287 Transporter associated domain; Region: CorC_HlyC; smart01091 491916008288 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 491916008289 Chromate transporter; Region: Chromate_transp; pfam02417 491916008290 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 491916008291 active site residue [active] 491916008292 Uncharacterized conserved protein [Function unknown]; Region: COG4275 491916008293 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 491916008294 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 491916008295 NUDIX domain; Region: NUDIX; pfam00293 491916008296 nudix motif; other site 491916008297 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491916008298 putative metal binding site [ion binding]; other site 491916008299 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916008300 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 491916008301 Walker A/P-loop; other site 491916008302 ATP binding site [chemical binding]; other site 491916008303 Q-loop/lid; other site 491916008304 ABC transporter signature motif; other site 491916008305 Walker B; other site 491916008306 D-loop; other site 491916008307 H-loop/switch region; other site 491916008308 TOBE domain; Region: TOBE_2; pfam08402 491916008309 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 491916008310 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 491916008311 dimer interface [polypeptide binding]; other site 491916008312 conserved gate region; other site 491916008313 putative PBP binding loops; other site 491916008314 ABC-ATPase subunit interface; other site 491916008315 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 491916008316 dimer interface [polypeptide binding]; other site 491916008317 conserved gate region; other site 491916008318 putative PBP binding loops; other site 491916008319 ABC-ATPase subunit interface; other site 491916008320 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491916008321 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916008322 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916008323 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916008324 MarR family; Region: MarR; pfam01047 491916008325 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 491916008326 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916008327 active site 491916008328 catalytic tetrad [active] 491916008329 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 491916008330 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 491916008331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916008332 homodimer interface [polypeptide binding]; other site 491916008333 catalytic residue [active] 491916008334 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 491916008335 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 491916008336 homodimer interface [polypeptide binding]; other site 491916008337 substrate-cofactor binding pocket; other site 491916008338 catalytic residue [active] 491916008339 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916008340 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 491916008341 S-adenosylmethionine binding site [chemical binding]; other site 491916008342 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491916008343 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 491916008344 S-adenosylmethionine binding site [chemical binding]; other site 491916008345 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 491916008346 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 491916008347 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 491916008348 catalytic core [active] 491916008349 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 491916008350 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 491916008351 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 491916008352 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 491916008353 ketol-acid reductoisomerase; Provisional; Region: PRK05479 491916008354 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 491916008355 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 491916008356 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916008357 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916008358 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 491916008359 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 491916008360 N- and C-terminal domain interface [polypeptide binding]; other site 491916008361 active site 491916008362 MgATP binding site [chemical binding]; other site 491916008363 catalytic site [active] 491916008364 metal binding site [ion binding]; metal-binding site 491916008365 carbohydrate binding site [chemical binding]; other site 491916008366 putative homodimer interface [polypeptide binding]; other site 491916008367 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 491916008368 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 491916008369 active site 491916008370 motif I; other site 491916008371 motif II; other site 491916008372 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 491916008373 Glycerophosphodiester phosphodiesterase domain of putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_pAtGDE_like; cd08565 491916008374 active site 491916008375 catalytic site [active] 491916008376 metal binding site [ion binding]; metal-binding site 491916008377 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916008378 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 491916008379 dimer interface [polypeptide binding]; other site 491916008380 conserved gate region; other site 491916008381 putative PBP binding loops; other site 491916008382 ABC-ATPase subunit interface; other site 491916008383 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 491916008384 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 491916008385 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916008386 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916008387 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916008388 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916008389 Walker A/P-loop; other site 491916008390 ATP binding site [chemical binding]; other site 491916008391 Q-loop/lid; other site 491916008392 ABC transporter signature motif; other site 491916008393 Walker B; other site 491916008394 D-loop; other site 491916008395 H-loop/switch region; other site 491916008396 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 491916008397 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491916008398 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491916008399 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 491916008400 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 491916008401 Ligand binding site; other site 491916008402 Putative Catalytic site; other site 491916008403 DXD motif; other site 491916008404 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 491916008405 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916008406 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 491916008407 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 491916008408 putative NAD(P) binding site [chemical binding]; other site 491916008409 putative substrate binding site [chemical binding]; other site 491916008410 catalytic Zn binding site [ion binding]; other site 491916008411 structural Zn binding site [ion binding]; other site 491916008412 dimer interface [polypeptide binding]; other site 491916008413 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 491916008414 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 491916008415 G1 box; other site 491916008416 GTP/Mg2+ binding site [chemical binding]; other site 491916008417 G2 box; other site 491916008418 Switch I region; other site 491916008419 G3 box; other site 491916008420 Switch II region; other site 491916008421 G4 box; other site 491916008422 G5 box; other site 491916008423 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 491916008424 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 491916008425 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 491916008426 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 491916008427 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916008428 BA14K-like protein; Region: BA14K; pfam07886 491916008429 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916008430 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 491916008431 putative DNA binding site [nucleotide binding]; other site 491916008432 putative Zn2+ binding site [ion binding]; other site 491916008433 AsnC family; Region: AsnC_trans_reg; pfam01037 491916008434 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 491916008435 aspartate racemase; Region: asp_race; TIGR00035 491916008436 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916008437 MarR family; Region: MarR_2; pfam12802 491916008438 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916008439 Coenzyme A binding pocket [chemical binding]; other site 491916008440 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916008441 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916008442 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 491916008443 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; cl17904 491916008444 Predicted transcriptional regulators [Transcription]; Region: COG1733 491916008445 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491916008446 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 491916008447 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 491916008448 NADP binding site [chemical binding]; other site 491916008449 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 491916008450 active site 491916008451 hydrophilic channel; other site 491916008452 dimerization interface [polypeptide binding]; other site 491916008453 catalytic residues [active] 491916008454 active site lid [active] 491916008455 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 491916008456 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 491916008457 DNA binding residues [nucleotide binding] 491916008458 dimer interface [polypeptide binding]; other site 491916008459 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916008460 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 491916008461 DNA binding residues [nucleotide binding] 491916008462 dimerization interface [polypeptide binding]; other site 491916008463 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 491916008464 AAA domain; Region: AAA_30; pfam13604 491916008465 Family description; Region: UvrD_C_2; pfam13538 491916008466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916008467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916008468 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 491916008469 putative effector binding pocket; other site 491916008470 dimerization interface [polypeptide binding]; other site 491916008471 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 491916008472 Uncharacterized conserved protein [Function unknown]; Region: COG2128 491916008473 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491916008474 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 491916008475 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491916008476 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916008477 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 491916008478 ligand binding site [chemical binding]; other site 491916008479 Predicted transcriptional regulator [Transcription]; Region: COG1959 491916008480 Transcriptional regulator; Region: Rrf2; pfam02082 491916008481 Transcriptional regulator; Region: Rrf2; cl17282 491916008482 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 491916008483 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 491916008484 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 491916008485 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916008486 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 491916008487 DNA binding residues [nucleotide binding] 491916008488 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 491916008489 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 491916008490 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 491916008491 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 491916008492 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 491916008493 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 491916008494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916008495 NADH(P)-binding; Region: NAD_binding_10; pfam13460 491916008496 NAD(P) binding site [chemical binding]; other site 491916008497 active site 491916008498 DoxX-like family; Region: DoxX_3; pfam13781 491916008499 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 491916008500 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916008501 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 491916008502 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916008503 active site 491916008504 catalytic tetrad [active] 491916008505 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 491916008506 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 491916008507 putative valine binding site [chemical binding]; other site 491916008508 dimer interface [polypeptide binding]; other site 491916008509 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 491916008510 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 491916008511 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491916008512 PYR/PP interface [polypeptide binding]; other site 491916008513 dimer interface [polypeptide binding]; other site 491916008514 TPP binding site [chemical binding]; other site 491916008515 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491916008516 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 491916008517 TPP-binding site [chemical binding]; other site 491916008518 dimer interface [polypeptide binding]; other site 491916008519 HAS barrel domain; Region: HAS-barrel; pfam09378 491916008520 HerA helicase [Replication, recombination, and repair]; Region: COG0433 491916008521 Domain of unknown function DUF87; Region: DUF87; pfam01935 491916008522 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916008523 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916008524 inhibitor site; inhibition site 491916008525 active site 491916008526 dimer interface [polypeptide binding]; other site 491916008527 catalytic residue [active] 491916008528 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916008529 ypch01021 491916008530 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 491916008531 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 491916008532 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 491916008533 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 491916008534 motif II; other site 491916008535 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 491916008536 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916008537 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 491916008538 protein binding site [polypeptide binding]; other site 491916008539 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 491916008540 protein binding site [polypeptide binding]; other site 491916008541 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 491916008542 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 491916008543 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 491916008544 HflK protein; Region: hflK; TIGR01933 491916008545 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 491916008546 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 491916008547 folate binding site [chemical binding]; other site 491916008548 NADP+ binding site [chemical binding]; other site 491916008549 thymidylate synthase; Reviewed; Region: thyA; PRK01827 491916008550 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 491916008551 dimerization interface [polypeptide binding]; other site 491916008552 active site 491916008553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 491916008554 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 491916008555 Ribbon-helix-helix domain; Region: RHH_4; cl01775 491916008556 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 491916008557 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 491916008558 FAD binding domain; Region: FAD_binding_4; pfam01565 491916008559 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 491916008560 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916008561 active site 491916008562 catalytic tetrad [active] 491916008563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916008564 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916008565 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 491916008566 dimerization interface [polypeptide binding]; other site 491916008567 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 491916008568 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 491916008569 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 491916008570 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 491916008571 dimerization interface [polypeptide binding]; other site 491916008572 putative DNA binding site [nucleotide binding]; other site 491916008573 putative Zn2+ binding site [ion binding]; other site 491916008574 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 491916008575 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 491916008576 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 491916008577 oligomer interface [polypeptide binding]; other site 491916008578 active site residues [active] 491916008579 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491916008580 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491916008581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916008582 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 491916008583 putative outer membrane lipoprotein; Provisional; Region: PRK10510 491916008584 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916008585 ligand binding site [chemical binding]; other site 491916008586 flagellin; Reviewed; Region: PRK12687 491916008587 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491916008588 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491916008589 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491916008590 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916008591 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 491916008592 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916008593 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916008594 cyclase homology domain; Region: CHD; cd07302 491916008595 nucleotidyl binding site; other site 491916008596 metal binding site [ion binding]; metal-binding site 491916008597 dimer interface [polypeptide binding]; other site 491916008598 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 491916008599 oligomeric interface; other site 491916008600 putative active site [active] 491916008601 homodimer interface [polypeptide binding]; other site 491916008602 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 491916008603 SpoVR family protein; Provisional; Region: PRK11767 491916008604 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 491916008605 hypothetical protein; Provisional; Region: PRK05325 491916008606 PrkA family serine protein kinase; Provisional; Region: PRK15455 491916008607 AAA ATPase domain; Region: AAA_16; pfam13191 491916008608 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 491916008609 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 491916008610 dimer interface [polypeptide binding]; other site 491916008611 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 491916008612 Part of AAA domain; Region: AAA_19; pfam13245 491916008613 Family description; Region: UvrD_C_2; pfam13538 491916008614 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 491916008615 Isochorismatase family; Region: Isochorismatase; pfam00857 491916008616 catalytic triad [active] 491916008617 metal binding site [ion binding]; metal-binding site 491916008618 conserved cis-peptide bond; other site 491916008619 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 491916008620 RibD C-terminal domain; Region: RibD_C; cl17279 491916008621 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 491916008622 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 491916008623 Predicted membrane protein [Function unknown]; Region: COG4541 491916008624 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 491916008625 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 491916008626 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 491916008627 active site 491916008628 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 491916008629 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 491916008630 S-adenosylmethionine binding site [chemical binding]; other site 491916008631 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 491916008632 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 491916008633 Cu(I) binding site [ion binding]; other site 491916008634 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916008635 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916008636 dimer interface [polypeptide binding]; other site 491916008637 putative CheW interface [polypeptide binding]; other site 491916008638 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 491916008639 putative CheA interaction surface; other site 491916008640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 491916008641 CreA protein; Region: CreA; pfam05981 491916008642 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 491916008643 active site 491916008644 catalytic site [active] 491916008645 substrate binding site [chemical binding]; other site 491916008646 putative acetyltransferase YhhY; Provisional; Region: PRK10140 491916008647 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916008648 Coenzyme A binding pocket [chemical binding]; other site 491916008649 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 491916008650 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 491916008651 nucleotide binding pocket [chemical binding]; other site 491916008652 K-X-D-G motif; other site 491916008653 catalytic site [active] 491916008654 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 491916008655 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 491916008656 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 491916008657 Dimer interface [polypeptide binding]; other site 491916008658 BRCT sequence motif; other site 491916008659 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 491916008660 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 491916008661 Walker A/P-loop; other site 491916008662 ATP binding site [chemical binding]; other site 491916008663 Q-loop/lid; other site 491916008664 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 491916008665 ABC transporter signature motif; other site 491916008666 Walker B; other site 491916008667 D-loop; other site 491916008668 H-loop/switch region; other site 491916008669 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 491916008670 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 491916008671 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 491916008672 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 491916008673 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 491916008674 nucleotide binding site [chemical binding]; other site 491916008675 SulA interaction site; other site 491916008676 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 491916008677 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 491916008678 Cell division protein FtsA; Region: FtsA; smart00842 491916008679 Cell division protein FtsA; Region: FtsA; pfam14450 491916008680 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 491916008681 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 491916008682 Cell division protein FtsQ; Region: FtsQ; pfam03799 491916008683 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 491916008684 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 491916008685 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491916008686 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916008687 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 491916008688 putative NAD(P) binding site [chemical binding]; other site 491916008689 active site 491916008690 putative substrate binding site [chemical binding]; other site 491916008691 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 491916008692 FAD binding domain; Region: FAD_binding_4; pfam01565 491916008693 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 491916008694 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 491916008695 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491916008696 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491916008697 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491916008698 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 491916008699 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 491916008700 active site 491916008701 homodimer interface [polypeptide binding]; other site 491916008702 cell division protein FtsW; Region: ftsW; TIGR02614 491916008703 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 491916008704 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491916008705 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491916008706 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 491916008707 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 491916008708 Mg++ binding site [ion binding]; other site 491916008709 putative catalytic motif [active] 491916008710 putative substrate binding site [chemical binding]; other site 491916008711 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 491916008712 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491916008713 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491916008714 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491916008715 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 491916008716 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491916008717 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491916008718 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 491916008719 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 491916008720 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491916008721 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 491916008722 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 491916008723 MraW methylase family; Region: Methyltransf_5; cl17771 491916008724 cell division protein MraZ; Reviewed; Region: PRK00326 491916008725 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916008726 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 491916008727 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916008728 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916008729 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 491916008730 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 491916008731 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491916008732 catalytic residue [active] 491916008733 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 491916008734 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 491916008735 amidase catalytic site [active] 491916008736 Zn binding residues [ion binding]; other site 491916008737 substrate binding site [chemical binding]; other site 491916008738 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916008739 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 491916008740 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 491916008741 putative metal binding site [ion binding]; other site 491916008742 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 491916008743 HSP70 interaction site [polypeptide binding]; other site 491916008744 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 491916008745 6-phosphofructokinase [Carbohydrate transport and metabolism]; Region: PfkA; COG0205 491916008746 active site 491916008747 ADP/pyrophosphate binding site [chemical binding]; other site 491916008748 allosteric effector site; other site 491916008749 dimerization interface [polypeptide binding]; other site 491916008750 fructose-1,6-bisphosphate binding site; other site 491916008751 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916008752 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 491916008753 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 491916008754 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 491916008755 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491916008756 catalytic residue [active] 491916008757 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 491916008758 Beta-lactamase; Region: Beta-lactamase; pfam00144 491916008759 S-adenosylmethionine:diacylglycerol 3-amino-3-carboxypropyl transferase [Lipid metabolism]; Region: BtaA; COG5379 491916008760 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 491916008761 S-adenosylmethionine binding site [chemical binding]; other site 491916008762 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 491916008763 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 491916008764 active site 491916008765 lytic murein transglycosylase; Region: MltB_2; TIGR02283 491916008766 murein hydrolase B; Provisional; Region: PRK10760; cl17906 491916008767 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916008768 EamA-like transporter family; Region: EamA; pfam00892 491916008769 EamA-like transporter family; Region: EamA; pfam00892 491916008770 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 491916008771 FAD binding site [chemical binding]; other site 491916008772 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 491916008773 putative DNA binding site [nucleotide binding]; other site 491916008774 dimerization interface [polypeptide binding]; other site 491916008775 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 491916008776 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 491916008777 S-adenosylmethionine binding site [chemical binding]; other site 491916008778 yich00025; insertion sequence:Integrase, catalytic core 491916008779 yich00026; insertion sequence:Transposase IS3/IS911 491916008780 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 491916008781 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916008782 Walker A/P-loop; other site 491916008783 ATP binding site [chemical binding]; other site 491916008784 Q-loop/lid; other site 491916008785 ABC transporter signature motif; other site 491916008786 Walker B; other site 491916008787 D-loop; other site 491916008788 H-loop/switch region; other site 491916008789 ABC transporter; Region: ABC_tran_2; pfam12848 491916008790 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916008791 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 491916008792 B1 nucleotide binding pocket [chemical binding]; other site 491916008793 B2 nucleotide binding pocket [chemical binding]; other site 491916008794 CAS motifs; other site 491916008795 active site 491916008796 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 491916008797 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916008798 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 491916008799 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916008800 EamA-like transporter family; Region: EamA; pfam00892 491916008801 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 491916008802 CoA-transferase family III; Region: CoA_transf_3; pfam02515 491916008803 thiamine pyrophosphate protein; Validated; Region: PRK08199 491916008804 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491916008805 PYR/PP interface [polypeptide binding]; other site 491916008806 dimer interface [polypeptide binding]; other site 491916008807 TPP binding site [chemical binding]; other site 491916008808 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491916008809 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 491916008810 TPP-binding site [chemical binding]; other site 491916008811 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 491916008812 homotrimer interaction site [polypeptide binding]; other site 491916008813 putative active site [active] 491916008814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 491916008815 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 491916008816 active site 491916008817 catalytic residues [active] 491916008818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916008819 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916008820 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 491916008821 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 491916008822 P-loop; other site 491916008823 Magnesium ion binding site [ion binding]; other site 491916008824 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 491916008825 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 491916008826 putative active site [active] 491916008827 metal binding site [ion binding]; metal-binding site 491916008828 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 491916008829 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 491916008830 NAD(P) binding site [chemical binding]; other site 491916008831 catalytic residues [active] 491916008832 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 491916008833 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 491916008834 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491916008835 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 491916008836 N-formylglutamate amidohydrolase; Region: FGase; cl01522 491916008837 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 491916008838 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 491916008839 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 491916008840 putative active site [active] 491916008841 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916008842 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491916008843 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4132 491916008844 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916008845 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 491916008846 dimer interface [polypeptide binding]; other site 491916008847 conserved gate region; other site 491916008848 putative PBP binding loops; other site 491916008849 ABC-ATPase subunit interface; other site 491916008850 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491916008851 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916008852 Walker A/P-loop; other site 491916008853 ATP binding site [chemical binding]; other site 491916008854 Q-loop/lid; other site 491916008855 ABC transporter signature motif; other site 491916008856 Walker B; other site 491916008857 D-loop; other site 491916008858 H-loop/switch region; other site 491916008859 TOBE domain; Region: TOBE_2; pfam08402 491916008860 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916008861 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916008862 Walker A/P-loop; other site 491916008863 ATP binding site [chemical binding]; other site 491916008864 Q-loop/lid; other site 491916008865 ABC transporter signature motif; other site 491916008866 Walker B; other site 491916008867 D-loop; other site 491916008868 H-loop/switch region; other site 491916008869 TOBE domain; Region: TOBE_2; pfam08402 491916008870 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916008871 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916008872 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916008873 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 491916008874 dimer interface [polypeptide binding]; other site 491916008875 conserved gate region; other site 491916008876 putative PBP binding loops; other site 491916008877 ABC-ATPase subunit interface; other site 491916008878 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 491916008879 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 491916008880 dimer interface [polypeptide binding]; other site 491916008881 conserved gate region; other site 491916008882 putative PBP binding loops; other site 491916008883 ABC-ATPase subunit interface; other site 491916008884 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916008885 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916008886 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 491916008887 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 491916008888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916008889 DNA-binding site [nucleotide binding]; DNA binding site 491916008890 UTRA domain; Region: UTRA; pfam07702 491916008891 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 491916008892 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 491916008893 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 491916008894 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 491916008895 substrate binding pocket [chemical binding]; other site 491916008896 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 491916008897 B12 binding site [chemical binding]; other site 491916008898 cobalt ligand [ion binding]; other site 491916008899 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 491916008900 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 491916008901 dimerization interface [polypeptide binding]; other site 491916008902 putative active cleft [active] 491916008903 hypothetical protein; Provisional; Region: PRK02487 491916008904 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 491916008905 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 491916008906 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916008907 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 491916008908 dimer interface [polypeptide binding]; other site 491916008909 conserved gate region; other site 491916008910 putative PBP binding loops; other site 491916008911 ABC-ATPase subunit interface; other site 491916008912 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 491916008913 dimer interface [polypeptide binding]; other site 491916008914 conserved gate region; other site 491916008915 putative PBP binding loops; other site 491916008916 ABC-ATPase subunit interface; other site 491916008917 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 491916008918 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916008919 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491916008920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916008921 Walker A/P-loop; other site 491916008922 ATP binding site [chemical binding]; other site 491916008923 Q-loop/lid; other site 491916008924 ABC transporter signature motif; other site 491916008925 Walker B; other site 491916008926 D-loop; other site 491916008927 H-loop/switch region; other site 491916008928 TOBE domain; Region: TOBE_2; pfam08402 491916008929 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916008930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916008931 DNA-binding site [nucleotide binding]; DNA binding site 491916008932 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 491916008933 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 491916008934 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 491916008935 GIY-YIG motif/motif A; other site 491916008936 putative active site [active] 491916008937 putative metal binding site [ion binding]; other site 491916008938 Autoinducer binding domain; Region: Autoind_bind; pfam03472 491916008939 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 491916008940 DNA binding residues [nucleotide binding] 491916008941 dimerization interface [polypeptide binding]; other site 491916008942 Autoinducer synthetase; Region: Autoind_synth; cl17404 491916008943 Response regulator receiver domain; Region: Response_reg; pfam00072 491916008944 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 491916008945 active site 491916008946 phosphorylation site [posttranslational modification] 491916008947 intermolecular recognition site; other site 491916008948 dimerization interface [polypeptide binding]; other site 491916008949 yich00027; insertion sequence:Integrase, catalytic core, phage 491916008950 Helix-turn-helix domain; Region: HTH_17; cl17695 491916008951 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 491916008952 non-specific DNA binding site [nucleotide binding]; other site 491916008953 salt bridge; other site 491916008954 sequence-specific DNA binding site [nucleotide binding]; other site 491916008955 Helix-turn-helix domain; Region: HTH_17; pfam12728 491916008956 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 491916008957 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 491916008958 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 491916008959 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 491916008960 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916008961 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 491916008962 putative binding site; other site 491916008963 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 491916008964 putative binding site; other site 491916008965 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 491916008966 Uncharacterized conserved protein [Function unknown]; Region: COG2968 491916008967 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 491916008968 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 491916008969 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 491916008970 Nucleoside transporter; Region: Nucleoside_tran; cl15430 491916008971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 491916008972 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 491916008973 B3/4 domain; Region: B3_4; pfam03483 491916008974 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916008975 EamA-like transporter family; Region: EamA; pfam00892 491916008976 yich00028; insertion sequence:Transposase, IS4-like 491916008977 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491916008978 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916008979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916008980 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 491916008981 Phosphotransferase enzyme family; Region: APH; pfam01636 491916008982 active site 491916008983 ATP binding site [chemical binding]; other site 491916008984 antibiotic binding site [chemical binding]; other site 491916008985 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 491916008986 Uncharacterized conserved protein [Function unknown]; Region: COG4274 491916008987 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 491916008988 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 491916008989 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 491916008990 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 491916008991 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916008992 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 491916008993 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 491916008994 DNA binding residues [nucleotide binding] 491916008995 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916008996 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 491916008997 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491916008998 NAD(P) binding site [chemical binding]; other site 491916008999 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 491916009000 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 491916009001 substrate-cofactor binding pocket; other site 491916009002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916009003 catalytic residue [active] 491916009004 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 491916009005 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 491916009006 ATP binding site [chemical binding]; other site 491916009007 putative Mg++ binding site [ion binding]; other site 491916009008 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 491916009009 nucleotide binding region [chemical binding]; other site 491916009010 ATP-binding site [chemical binding]; other site 491916009011 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 491916009012 HRDC domain; Region: HRDC; pfam00570 491916009013 DNA primase; Validated; Region: dnaG; PRK05667 491916009014 CHC2 zinc finger; Region: zf-CHC2; cl17510 491916009015 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 491916009016 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 491916009017 active site 491916009018 metal binding site [ion binding]; metal-binding site 491916009019 interdomain interaction site; other site 491916009020 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 491916009021 Yqey-like protein; Region: YqeY; pfam09424 491916009022 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 491916009023 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 491916009024 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 491916009025 catalytic site [active] 491916009026 subunit interface [polypeptide binding]; other site 491916009027 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 491916009028 Moco binding site; other site 491916009029 metal coordination site [ion binding]; other site 491916009030 dimerization interface [polypeptide binding]; other site 491916009031 multidrug efflux protein; Reviewed; Region: PRK01766 491916009032 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 491916009033 cation binding site [ion binding]; other site 491916009034 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916009035 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 491916009036 putative substrate translocation pore; other site 491916009037 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 491916009038 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916009039 active site 491916009040 catalytic tetrad [active] 491916009041 Predicted metalloprotease [General function prediction only]; Region: COG2321 491916009042 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 491916009043 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491916009044 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 491916009045 putative NAD(P) binding site [chemical binding]; other site 491916009046 catalytic Zn binding site [ion binding]; other site 491916009047 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 491916009048 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491916009049 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491916009050 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 491916009051 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491916009052 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491916009053 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 491916009054 IMP binding site; other site 491916009055 dimer interface [polypeptide binding]; other site 491916009056 partial ornithine binding site; other site 491916009057 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 491916009058 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 491916009059 Fe-S cluster binding site [ion binding]; other site 491916009060 active site 491916009061 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 491916009062 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 491916009063 FeS/SAM binding site; other site 491916009064 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 491916009065 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 491916009066 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 491916009067 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916009068 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 491916009069 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 491916009070 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 491916009071 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 491916009072 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 491916009073 dimer interface [polypeptide binding]; other site 491916009074 phosphorylation site [posttranslational modification] 491916009075 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 491916009076 ATP binding site [chemical binding]; other site 491916009077 Mg2+ binding site [ion binding]; other site 491916009078 G-X-G motif; other site 491916009079 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491916009080 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 491916009081 active site 491916009082 phosphorylation site [posttranslational modification] 491916009083 intermolecular recognition site; other site 491916009084 dimerization interface [polypeptide binding]; other site 491916009085 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 491916009086 Walker A motif; other site 491916009087 ATP binding site [chemical binding]; other site 491916009088 Walker B motif; other site 491916009089 arginine finger; other site 491916009090 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491916009091 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916009092 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 491916009093 putative DNA binding site [nucleotide binding]; other site 491916009094 putative Zn2+ binding site [ion binding]; other site 491916009095 AsnC family; Region: AsnC_trans_reg; pfam01037 491916009096 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 491916009097 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916009098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916009099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916009100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916009101 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 491916009102 putative effector binding pocket; other site 491916009103 dimerization interface [polypeptide binding]; other site 491916009104 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 491916009105 dimerization interface [polypeptide binding]; other site 491916009106 putative DNA binding site [nucleotide binding]; other site 491916009107 putative Zn2+ binding site [ion binding]; other site 491916009108 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 491916009109 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 491916009110 FMN binding site [chemical binding]; other site 491916009111 active site 491916009112 substrate binding site [chemical binding]; other site 491916009113 catalytic residue [active] 491916009114 Streptomycin 6-kinase [Defense mechanisms]; Region: StrB; COG3570 491916009115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916009116 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916009117 NAD(P) binding site [chemical binding]; other site 491916009118 active site 491916009119 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916009120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916009121 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 491916009122 dimerization interface [polypeptide binding]; other site 491916009123 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 491916009124 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 491916009125 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 491916009126 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 491916009127 Ligand binding site; other site 491916009128 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 491916009129 metal-binding site 491916009130 aspartate aminotransferase; Provisional; Region: PRK05764 491916009131 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 491916009132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916009133 homodimer interface [polypeptide binding]; other site 491916009134 catalytic residue [active] 491916009135 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 491916009136 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 491916009137 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 491916009138 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 491916009139 metal ion-dependent adhesion site (MIDAS); other site 491916009140 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 491916009141 active site 491916009142 catalytic site [active] 491916009143 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 491916009144 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 491916009145 EamA-like transporter family; Region: EamA; pfam00892 491916009146 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 491916009147 DNA-binding site [nucleotide binding]; DNA binding site 491916009148 RNA-binding motif; other site 491916009149 BA14K-like protein; Region: BA14K; pfam07886 491916009150 short chain dehydrogenase; Provisional; Region: PRK06180 491916009151 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 491916009152 NADP binding site [chemical binding]; other site 491916009153 active site 491916009154 steroid binding site; other site 491916009155 Predicted transcriptional regulators [Transcription]; Region: COG1733 491916009156 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 491916009157 dimerization interface [polypeptide binding]; other site 491916009158 putative Zn2+ binding site [ion binding]; other site 491916009159 putative DNA binding site [nucleotide binding]; other site 491916009160 HAMP domain; Region: HAMP; pfam00672 491916009161 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 491916009162 ATP binding site [chemical binding]; other site 491916009163 Mg2+ binding site [ion binding]; other site 491916009164 G-X-G motif; other site 491916009165 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916009166 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 491916009167 active site 491916009168 phosphorylation site [posttranslational modification] 491916009169 intermolecular recognition site; other site 491916009170 dimerization interface [polypeptide binding]; other site 491916009171 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 491916009172 DNA binding site [nucleotide binding] 491916009173 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916009174 MarR family; Region: MarR_2; pfam12802 491916009175 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 491916009176 Bacterial SH3 domain; Region: SH3_3; pfam08239 491916009177 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 491916009178 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 491916009179 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 491916009180 dimer interface [polypeptide binding]; other site 491916009181 putative tRNA-binding site [nucleotide binding]; other site 491916009182 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 491916009183 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 491916009184 Uncharacterized conserved protein [Function unknown]; Region: COG5465 491916009185 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 491916009186 Uncharacterized conserved protein [Function unknown]; Region: COG1565 491916009187 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 491916009188 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 491916009189 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 491916009190 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 491916009191 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 491916009192 active site 491916009193 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 491916009194 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 491916009195 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 491916009196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916009197 active site 491916009198 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 491916009199 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 491916009200 5S rRNA interface [nucleotide binding]; other site 491916009201 CTC domain interface [polypeptide binding]; other site 491916009202 L16 interface [polypeptide binding]; other site 491916009203 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 491916009204 dimerization interface [polypeptide binding]; other site 491916009205 PAS domain; Region: PAS_9; pfam13426 491916009206 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916009207 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916009208 metal binding site [ion binding]; metal-binding site 491916009209 active site 491916009210 I-site; other site 491916009211 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 491916009212 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 491916009213 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916009214 substrate binding pocket [chemical binding]; other site 491916009215 membrane-bound complex binding site; other site 491916009216 hinge residues; other site 491916009217 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 491916009218 putative active site [active] 491916009219 catalytic residue [active] 491916009220 putative acetyltransferase; Provisional; Region: PRK03624 491916009221 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916009222 Coenzyme A binding pocket [chemical binding]; other site 491916009223 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 491916009224 GTP-binding protein YchF; Reviewed; Region: PRK09601 491916009225 YchF GTPase; Region: YchF; cd01900 491916009226 G1 box; other site 491916009227 GTP/Mg2+ binding site [chemical binding]; other site 491916009228 Switch I region; other site 491916009229 G2 box; other site 491916009230 Switch II region; other site 491916009231 G3 box; other site 491916009232 G4 box; other site 491916009233 G5 box; other site 491916009234 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 491916009235 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 491916009236 putative active site [active] 491916009237 putative catalytic site [active] 491916009238 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 491916009239 putative active site [active] 491916009240 putative catalytic site [active] 491916009241 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916009242 active site 491916009243 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 491916009244 cytochrome b; Provisional; Region: CYTB; MTH00191 491916009245 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 491916009246 Qi binding site; other site 491916009247 intrachain domain interface; other site 491916009248 interchain domain interface [polypeptide binding]; other site 491916009249 heme bH binding site [chemical binding]; other site 491916009250 heme bL binding site [chemical binding]; other site 491916009251 Qo binding site; other site 491916009252 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 491916009253 interchain domain interface [polypeptide binding]; other site 491916009254 intrachain domain interface; other site 491916009255 Qi binding site; other site 491916009256 Qo binding site; other site 491916009257 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 491916009258 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 491916009259 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 491916009260 [2Fe-2S] cluster binding site [ion binding]; other site 491916009261 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491916009262 putative catalytic site [active] 491916009263 putative metal binding site [ion binding]; other site 491916009264 putative phosphate binding site [ion binding]; other site 491916009265 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916009266 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916009267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916009268 Walker A/P-loop; other site 491916009269 ATP binding site [chemical binding]; other site 491916009270 Q-loop/lid; other site 491916009271 ABC transporter signature motif; other site 491916009272 Walker B; other site 491916009273 D-loop; other site 491916009274 H-loop/switch region; other site 491916009275 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916009276 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916009277 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 491916009278 Walker A/P-loop; other site 491916009279 ATP binding site [chemical binding]; other site 491916009280 Q-loop/lid; other site 491916009281 ABC transporter signature motif; other site 491916009282 Walker B; other site 491916009283 D-loop; other site 491916009284 H-loop/switch region; other site 491916009285 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 491916009286 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 491916009287 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 491916009288 PhoU domain; Region: PhoU; pfam01895 491916009289 PhoU domain; Region: PhoU; pfam01895 491916009290 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 491916009291 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 491916009292 Predicted small metal-binding protein [Function unknown]; Region: COG5466 491916009293 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 491916009294 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 491916009295 active site 491916009296 NTP binding site [chemical binding]; other site 491916009297 metal binding triad [ion binding]; metal-binding site 491916009298 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 491916009299 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 491916009300 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 491916009301 putative active site [active] 491916009302 putative CoA binding site [chemical binding]; other site 491916009303 nudix motif; other site 491916009304 metal binding site [ion binding]; metal-binding site 491916009305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 491916009306 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 491916009307 MoxR-like ATPases [General function prediction only]; Region: COG0714 491916009308 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 491916009309 Walker A motif; other site 491916009310 ATP binding site [chemical binding]; other site 491916009311 Walker B motif; other site 491916009312 arginine finger; other site 491916009313 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 491916009314 Protein of unknown function DUF58; Region: DUF58; pfam01882 491916009315 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 491916009316 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 491916009317 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 491916009318 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 491916009319 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916009320 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916009321 Coenzyme A binding pocket [chemical binding]; other site 491916009322 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 491916009323 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 491916009324 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 491916009325 putative dimer interface [polypeptide binding]; other site 491916009326 N-terminal domain interface [polypeptide binding]; other site 491916009327 putative substrate binding pocket (H-site) [chemical binding]; other site 491916009328 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 491916009329 nudix motif; other site 491916009330 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491916009331 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 491916009332 putative active site [active] 491916009333 putative metal binding site [ion binding]; other site 491916009334 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 491916009335 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 491916009336 binding surface 491916009337 TPR repeat; Region: TPR_11; pfam13414 491916009338 TPR motif; other site 491916009339 RNA polymerase sigma factor; Provisional; Region: PRK12547 491916009340 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916009341 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 491916009342 DNA binding residues [nucleotide binding] 491916009343 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 491916009344 2-isopropylmalate synthase; Validated; Region: PRK03739 491916009345 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 491916009346 active site 491916009347 catalytic residues [active] 491916009348 metal binding site [ion binding]; metal-binding site 491916009349 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 491916009350 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 491916009351 benzoate transporter; Region: benE; TIGR00843 491916009352 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 491916009353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916009354 NAD(P) binding site [chemical binding]; other site 491916009355 active site 491916009356 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 491916009357 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 491916009358 oligomer interface [polypeptide binding]; other site 491916009359 active site residues [active] 491916009360 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 491916009361 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 491916009362 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 491916009363 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 491916009364 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 491916009365 anthranilate synthase; Provisional; Region: PRK13566 491916009366 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 491916009367 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 491916009368 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 491916009369 glutamine binding [chemical binding]; other site 491916009370 catalytic triad [active] 491916009371 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 491916009372 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 491916009373 N-terminal plug; other site 491916009374 ligand-binding site [chemical binding]; other site 491916009375 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 491916009376 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 491916009377 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 491916009378 Potassium binding sites [ion binding]; other site 491916009379 Cesium cation binding sites [ion binding]; other site 491916009380 hypothetical protein; Provisional; Region: PRK05208 491916009381 Predicted periplasmic protein [Function unknown]; Region: COG3904 491916009382 Autoinducer binding domain; Region: Autoind_bind; pfam03472 491916009383 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 491916009384 DNA binding residues [nucleotide binding] 491916009385 dimerization interface [polypeptide binding]; other site 491916009386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 491916009387 thymidine kinase; Provisional; Region: PRK04296 491916009388 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 491916009389 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 491916009390 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 491916009391 dimer interface [polypeptide binding]; other site 491916009392 conserved gate region; other site 491916009393 putative PBP binding loops; other site 491916009394 ABC-ATPase subunit interface; other site 491916009395 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 491916009396 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916009397 Walker A/P-loop; other site 491916009398 ATP binding site [chemical binding]; other site 491916009399 Q-loop/lid; other site 491916009400 ABC transporter signature motif; other site 491916009401 Walker B; other site 491916009402 D-loop; other site 491916009403 H-loop/switch region; other site 491916009404 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 491916009405 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 491916009406 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 491916009407 dimerization interface [polypeptide binding]; other site 491916009408 putative DNA binding site [nucleotide binding]; other site 491916009409 putative Zn2+ binding site [ion binding]; other site 491916009410 omega amino acid--pyruvate transaminase; Provisional; Region: PRK13360 491916009411 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 491916009412 inhibitor-cofactor binding pocket; inhibition site 491916009413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916009414 catalytic residue [active] 491916009415 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 491916009416 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 491916009417 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491916009418 Zn2+ binding site [ion binding]; other site 491916009419 Mg2+ binding site [ion binding]; other site 491916009420 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 491916009421 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 491916009422 dimerization interface [polypeptide binding]; other site 491916009423 ligand binding site [chemical binding]; other site 491916009424 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 491916009425 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 491916009426 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 491916009427 active site 491916009428 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 491916009429 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 491916009430 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 491916009431 active site 491916009432 catalytic site [active] 491916009433 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 491916009434 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 491916009435 peptide binding site [polypeptide binding]; other site 491916009436 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 491916009437 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 491916009438 dimer interface [polypeptide binding]; other site 491916009439 conserved gate region; other site 491916009440 putative PBP binding loops; other site 491916009441 ABC-ATPase subunit interface; other site 491916009442 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 491916009443 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 491916009444 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 491916009445 dimer interface [polypeptide binding]; other site 491916009446 conserved gate region; other site 491916009447 putative PBP binding loops; other site 491916009448 ABC-ATPase subunit interface; other site 491916009449 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 491916009450 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916009451 Walker A/P-loop; other site 491916009452 ATP binding site [chemical binding]; other site 491916009453 Q-loop/lid; other site 491916009454 ABC transporter signature motif; other site 491916009455 Walker B; other site 491916009456 D-loop; other site 491916009457 H-loop/switch region; other site 491916009458 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491916009459 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 491916009460 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916009461 Walker A/P-loop; other site 491916009462 ATP binding site [chemical binding]; other site 491916009463 Q-loop/lid; other site 491916009464 ABC transporter signature motif; other site 491916009465 Walker B; other site 491916009466 D-loop; other site 491916009467 H-loop/switch region; other site 491916009468 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491916009469 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 491916009470 substrate binding site [chemical binding]; other site 491916009471 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916009472 ATP binding site [chemical binding]; other site 491916009473 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 491916009474 glutamine synthetase; Region: PLN02284 491916009475 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 491916009476 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491916009477 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916009478 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_2; cd03814 491916009479 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 491916009480 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 491916009481 MarR family; Region: MarR; pfam01047 491916009482 GTP-binding protein Der; Reviewed; Region: PRK00093 491916009483 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 491916009484 G1 box; other site 491916009485 GTP/Mg2+ binding site [chemical binding]; other site 491916009486 Switch I region; other site 491916009487 G2 box; other site 491916009488 Switch II region; other site 491916009489 G3 box; other site 491916009490 G4 box; other site 491916009491 G5 box; other site 491916009492 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 491916009493 G1 box; other site 491916009494 GTP/Mg2+ binding site [chemical binding]; other site 491916009495 Switch I region; other site 491916009496 G2 box; other site 491916009497 G3 box; other site 491916009498 Switch II region; other site 491916009499 G4 box; other site 491916009500 G5 box; other site 491916009501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 491916009502 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 491916009503 NnrU protein; Region: NnrU; pfam07298 491916009504 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 491916009505 NodB motif; other site 491916009506 putative active site [active] 491916009507 putative catalytic site [active] 491916009508 microcin B17 transporter; Reviewed; Region: PRK11098 491916009509 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 491916009510 Predicted transcriptional regulators [Transcription]; Region: COG1695 491916009511 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 491916009512 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 491916009513 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 491916009514 active site 491916009515 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 491916009516 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 491916009517 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 491916009518 putative hydrophobic ligand binding site [chemical binding]; other site 491916009519 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 491916009520 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916009521 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 491916009522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 491916009523 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 491916009524 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 491916009525 N- and C-terminal domain interface [polypeptide binding]; other site 491916009526 active site 491916009527 MgATP binding site [chemical binding]; other site 491916009528 catalytic site [active] 491916009529 metal binding site [ion binding]; metal-binding site 491916009530 glycerol binding site [chemical binding]; other site 491916009531 homotetramer interface [polypeptide binding]; other site 491916009532 homodimer interface [polypeptide binding]; other site 491916009533 FBP binding site [chemical binding]; other site 491916009534 protein IIAGlc interface [polypeptide binding]; other site 491916009535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916009536 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 491916009537 NAD(P) binding site [chemical binding]; other site 491916009538 active site 491916009539 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 491916009540 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 491916009541 catalytic loop [active] 491916009542 iron binding site [ion binding]; other site 491916009543 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 491916009544 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 491916009545 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 491916009546 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 491916009547 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 491916009548 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 491916009549 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 491916009550 XdhC Rossmann domain; Region: XdhC_C; pfam13478 491916009551 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916009552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916009553 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 491916009554 dimerization interface [polypeptide binding]; other site 491916009555 substrate binding pocket [chemical binding]; other site 491916009556 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 491916009557 catalytic triad [active] 491916009558 active site nucleophile [active] 491916009559 Predicted membrane protein [Function unknown]; Region: COG3748 491916009560 Protein of unknown function (DUF989); Region: DUF989; pfam06181 491916009561 Cytochrome c; Region: Cytochrom_C; pfam00034 491916009562 guanine deaminase; Provisional; Region: PRK09228 491916009563 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 491916009564 active site 491916009565 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 491916009566 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 491916009567 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 491916009568 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 491916009569 phosphate binding site [ion binding]; other site 491916009570 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 491916009571 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 491916009572 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 491916009573 putative active site [active] 491916009574 putative NTP binding site [chemical binding]; other site 491916009575 putative nucleic acid binding site [nucleotide binding]; other site 491916009576 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 491916009577 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916009578 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 491916009579 Part of AAA domain; Region: AAA_19; pfam13245 491916009580 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 491916009581 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 491916009582 putative active site [active] 491916009583 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 491916009584 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 491916009585 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 491916009586 cofactor binding site; other site 491916009587 DNA binding site [nucleotide binding] 491916009588 substrate interaction site [chemical binding]; other site 491916009589 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491916009590 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916009591 Coenzyme A binding pocket [chemical binding]; other site 491916009592 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 491916009593 hypothetical protein; Provisional; Region: PRK10040 491916009594 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491916009595 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 491916009596 ATP binding site [chemical binding]; other site 491916009597 putative Mg++ binding site [ion binding]; other site 491916009598 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 491916009599 nucleotide binding region [chemical binding]; other site 491916009600 ATP-binding site [chemical binding]; other site 491916009601 HNH endonuclease; Region: HNH_2; pfam13391 491916009602 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 491916009603 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 491916009604 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 491916009605 putative DNA binding site [nucleotide binding]; other site 491916009606 putative homodimer interface [polypeptide binding]; other site 491916009607 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 491916009608 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 491916009609 putative DNA binding site [nucleotide binding]; other site 491916009610 putative homodimer interface [polypeptide binding]; other site 491916009611 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 491916009612 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 491916009613 putative active site [active] 491916009614 putative PHP Thumb interface [polypeptide binding]; other site 491916009615 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 491916009616 generic binding surface I; other site 491916009617 generic binding surface II; other site 491916009618 DNA Polymerase Y-family; Region: PolY_like; cd03468 491916009619 active site 491916009620 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 491916009621 DNA binding site [nucleotide binding] 491916009622 Uncharacterized conserved protein [Function unknown]; Region: COG4544 491916009623 Uncharacterized conserved protein [Function unknown]; Region: COG2135 491916009624 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491916009625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916009626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916009627 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 491916009628 putative effector binding pocket; other site 491916009629 dimerization interface [polypeptide binding]; other site 491916009630 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; cl15777 491916009631 Staphylococcal nuclease homologues; Region: SNc; smart00318 491916009632 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 491916009633 Catalytic site; other site 491916009634 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 491916009635 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 491916009636 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 491916009637 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491916009638 putative catalytic site [active] 491916009639 putative metal binding site [ion binding]; other site 491916009640 putative phosphate binding site [ion binding]; other site 491916009641 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491916009642 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 491916009643 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491916009644 Walker A motif; other site 491916009645 ATP binding site [chemical binding]; other site 491916009646 Walker B motif; other site 491916009647 arginine finger; other site 491916009648 Peptidase family M41; Region: Peptidase_M41; pfam01434 491916009649 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 491916009650 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 491916009651 oligomeric interface; other site 491916009652 putative active site [active] 491916009653 homodimer interface [polypeptide binding]; other site 491916009654 yich00029; insertion sequence:Integrase, catalytic core 491916009655 Bacterial TniB protein; Region: TniB; pfam05621 491916009656 AAA domain; Region: AAA_22; pfam13401 491916009657 TniQ; Region: TniQ; pfam06527 491916009658 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 491916009659 active site 491916009660 active site 491916009661 catalytic residues [active] 491916009662 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 491916009663 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 491916009664 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916009665 Putative methyltransferase; Region: Methyltransf_20; pfam12147 491916009666 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 491916009667 phage shock protein A; Region: phageshock_pspA; TIGR02977 491916009668 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 491916009669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 491916009670 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 491916009671 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491916009672 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 491916009673 active site 491916009674 metal binding site [ion binding]; metal-binding site 491916009675 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 491916009676 active site 491916009677 homotetramer interface [polypeptide binding]; other site 491916009678 ureidoglycolate hydrolase; Provisional; Region: PRK03606 491916009679 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 491916009680 Protein of unknown function DUF86; Region: DUF86; cl01031 491916009681 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 491916009682 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 491916009683 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 491916009684 active site 491916009685 catalytic site [active] 491916009686 tetramer interface [polypeptide binding]; other site 491916009687 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 491916009688 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 491916009689 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916009690 Uncharacterized conserved protein [Function unknown]; Region: COG4121 491916009691 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 491916009692 PAS domain; Region: PAS_9; pfam13426 491916009693 putative active site [active] 491916009694 heme pocket [chemical binding]; other site 491916009695 PAS domain; Region: PAS; smart00091 491916009696 PAS fold; Region: PAS_7; pfam12860 491916009697 PAS fold; Region: PAS_7; pfam12860 491916009698 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 491916009699 dimer interface [polypeptide binding]; other site 491916009700 phosphorylation site [posttranslational modification] 491916009701 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 491916009702 ATP binding site [chemical binding]; other site 491916009703 Mg2+ binding site [ion binding]; other site 491916009704 G-X-G motif; other site 491916009705 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916009706 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 491916009707 active site 491916009708 phosphorylation site [posttranslational modification] 491916009709 intermolecular recognition site; other site 491916009710 dimerization interface [polypeptide binding]; other site 491916009711 Response regulator receiver domain; Region: Response_reg; pfam00072 491916009712 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 491916009713 active site 491916009714 phosphorylation site [posttranslational modification] 491916009715 intermolecular recognition site; other site 491916009716 dimerization interface [polypeptide binding]; other site 491916009717 benzoate transport; Region: 2A0115; TIGR00895 491916009718 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 491916009719 putative substrate translocation pore; other site 491916009720 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 491916009721 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916009722 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916009723 inhibitor site; inhibition site 491916009724 active site 491916009725 dimer interface [polypeptide binding]; other site 491916009726 catalytic residue [active] 491916009727 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916009728 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916009729 DNA binding site [nucleotide binding] 491916009730 domain linker motif; other site 491916009731 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491916009732 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 491916009733 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 491916009734 DEAD-like helicases superfamily; Region: DEXDc; smart00487 491916009735 ATP binding site [chemical binding]; other site 491916009736 Mg++ binding site [ion binding]; other site 491916009737 motif III; other site 491916009738 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 491916009739 nucleotide binding region [chemical binding]; other site 491916009740 ATP-binding site [chemical binding]; other site 491916009741 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916009742 EamA-like transporter family; Region: EamA; pfam00892 491916009743 yich00030; insertion sequence:Transposase, IS66 491916009744 yich00031; insertion sequence:Transposase (), IS66 Orf2 like 491916009745 yich00032; insertion sequence:Transposase IS3/IS911 491916009746 Uncharacterized conserved protein [Function unknown]; Region: COG2308 491916009747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 491916009748 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 491916009749 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 491916009750 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 491916009751 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 491916009752 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 491916009753 putative active site [active] 491916009754 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 491916009755 dihydroxy-acid dehydratase; Validated; Region: PRK06131 491916009756 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 491916009757 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916009758 NAD(P) binding site [chemical binding]; other site 491916009759 catalytic residues [active] 491916009760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 491916009761 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 491916009762 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916009763 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 491916009764 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 491916009765 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916009766 TM-ABC transporter signature motif; other site 491916009767 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916009768 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916009769 Walker A/P-loop; other site 491916009770 ATP binding site [chemical binding]; other site 491916009771 Q-loop/lid; other site 491916009772 ABC transporter signature motif; other site 491916009773 Walker B; other site 491916009774 D-loop; other site 491916009775 H-loop/switch region; other site 491916009776 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916009777 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 491916009778 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 491916009779 putative ligand binding site [chemical binding]; other site 491916009780 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916009781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916009782 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 491916009783 putative dimerization interface [polypeptide binding]; other site 491916009784 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916009785 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916009786 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916009787 MarR family; Region: MarR_2; cl17246 491916009788 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916009789 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 491916009790 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 491916009791 putative ligand binding site [chemical binding]; other site 491916009792 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 491916009793 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916009794 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 491916009795 TM-ABC transporter signature motif; other site 491916009796 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916009797 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916009798 Walker A/P-loop; other site 491916009799 ATP binding site [chemical binding]; other site 491916009800 Q-loop/lid; other site 491916009801 ABC transporter signature motif; other site 491916009802 Walker B; other site 491916009803 D-loop; other site 491916009804 H-loop/switch region; other site 491916009805 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916009806 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 491916009807 dimer interface [polypeptide binding]; other site 491916009808 conserved gate region; other site 491916009809 ABC-ATPase subunit interface; other site 491916009810 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916009811 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 491916009812 dimer interface [polypeptide binding]; other site 491916009813 conserved gate region; other site 491916009814 putative PBP binding loops; other site 491916009815 ABC-ATPase subunit interface; other site 491916009816 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916009817 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 491916009818 substrate binding pocket [chemical binding]; other site 491916009819 membrane-bound complex binding site; other site 491916009820 hinge residues; other site 491916009821 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916009822 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916009823 Walker A/P-loop; other site 491916009824 ATP binding site [chemical binding]; other site 491916009825 Q-loop/lid; other site 491916009826 ABC transporter signature motif; other site 491916009827 Walker B; other site 491916009828 D-loop; other site 491916009829 H-loop/switch region; other site 491916009830 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 491916009831 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 491916009832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916009833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916009834 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 491916009835 dimerization interface [polypeptide binding]; other site 491916009836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 491916009837 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 491916009838 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 491916009839 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 491916009840 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 491916009841 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 491916009842 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 491916009843 putative homodimer interface [polypeptide binding]; other site 491916009844 putative homotetramer interface [polypeptide binding]; other site 491916009845 putative metal binding site [ion binding]; other site 491916009846 putative homodimer-homodimer interface [polypeptide binding]; other site 491916009847 putative allosteric switch controlling residues; other site 491916009848 Predicted membrane protein [Function unknown]; Region: COG1238 491916009849 High-affinity nickel-transport protein; Region: NicO; cl00964 491916009850 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 491916009851 Ion channel; Region: Ion_trans_2; pfam07885 491916009852 yich00033; insertion sequence:Transposase IS3/IS911 491916009853 yich00034; insertion sequence:Transposase (), IS66 Orf2 like 491916009854 yich00035; insertion sequence:Transposase, IS66 491916009855 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916009856 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 491916009857 ligand binding site [chemical binding]; other site 491916009858 flexible hinge region; other site 491916009859 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916009860 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 491916009861 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 491916009862 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 491916009863 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 491916009864 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 491916009865 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916009866 putative ADP-binding pocket [chemical binding]; other site 491916009867 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 491916009868 Acyltransferase family; Region: Acyl_transf_3; pfam01757 491916009869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916009870 Coenzyme A binding pocket [chemical binding]; other site 491916009871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 491916009872 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 491916009873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 491916009874 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 491916009875 GYD domain; Region: GYD; pfam08734 491916009876 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916009877 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 491916009878 TM-ABC transporter signature motif; other site 491916009879 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916009880 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916009881 Walker A/P-loop; other site 491916009882 ATP binding site [chemical binding]; other site 491916009883 Q-loop/lid; other site 491916009884 ABC transporter signature motif; other site 491916009885 Walker B; other site 491916009886 D-loop; other site 491916009887 H-loop/switch region; other site 491916009888 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916009889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916009890 NAD(P) binding site [chemical binding]; other site 491916009891 active site 491916009892 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 491916009893 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916009894 ligand binding site [chemical binding]; other site 491916009895 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916009896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916009897 The C-terminal substrate-domain of LysR-type transcriptional regulators for beta-lactamase genes, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_beta_lactamase; cd08484 491916009898 putative dimerization interface [polypeptide binding]; other site 491916009899 putative substrate binding pocket [chemical binding]; other site 491916009900 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 491916009901 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 491916009902 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916009903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916009904 NAD(P) binding site [chemical binding]; other site 491916009905 active site 491916009906 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 491916009907 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 491916009908 active site 491916009909 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 491916009910 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491916009911 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 491916009912 active site 491916009913 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491916009914 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 491916009915 S-adenosylmethionine binding site [chemical binding]; other site 491916009916 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 491916009917 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 491916009918 putative active site [active] 491916009919 putative metal binding site [ion binding]; other site 491916009920 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491916009921 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 491916009922 active site 491916009923 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916009924 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491916009925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916009926 Walker A/P-loop; other site 491916009927 ATP binding site [chemical binding]; other site 491916009928 Q-loop/lid; other site 491916009929 ABC transporter signature motif; other site 491916009930 Walker B; other site 491916009931 D-loop; other site 491916009932 H-loop/switch region; other site 491916009933 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 491916009934 active site 491916009935 TfuA-like protein; Region: TfuA; pfam07812 491916009936 YcaO-like family; Region: YcaO; pfam02624 491916009937 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 491916009938 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 491916009939 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 491916009940 TPR motif; other site 491916009941 binding surface 491916009942 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491916009943 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 491916009944 TPR motif; other site 491916009945 binding surface 491916009946 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916009947 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 491916009948 non-specific DNA binding site [nucleotide binding]; other site 491916009949 salt bridge; other site 491916009950 sequence-specific DNA binding site [nucleotide binding]; other site 491916009951 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916009952 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 491916009953 S-adenosylmethionine binding site [chemical binding]; other site 491916009954 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 491916009955 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: GT1_like_7; cd05844 491916009956 putative ADP-binding pocket [chemical binding]; other site 491916009957 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916009958 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 491916009959 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 491916009960 trimer interface [polypeptide binding]; other site 491916009961 active site 491916009962 CoA binding site [chemical binding]; other site 491916009963 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 491916009964 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 491916009965 active site 491916009966 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 491916009967 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 491916009968 putative ADP-binding pocket [chemical binding]; other site 491916009969 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 491916009970 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 491916009971 active site 491916009972 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 491916009973 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 491916009974 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 491916009975 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 491916009976 active site 491916009977 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 491916009978 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491916009979 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 491916009980 active site 491916009981 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 491916009982 active site 491916009983 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 491916009984 O-Antigen ligase; Region: Wzy_C; pfam04932 491916009985 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 491916009986 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; pfam04101 491916009987 SGNH_hydrolase, or GDSL_hydrolase, is 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 hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 491916009988 active site 491916009989 catalytic triad [active] 491916009990 oxyanion hole [active] 491916009991 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 491916009992 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916009993 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916009994 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 491916009995 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916009996 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 491916009997 Walker A/P-loop; other site 491916009998 ATP binding site [chemical binding]; other site 491916009999 Q-loop/lid; other site 491916010000 ABC transporter signature motif; other site 491916010001 Walker B; other site 491916010002 D-loop; other site 491916010003 H-loop/switch region; other site 491916010004 Right handed beta helix region; Region: Beta_helix; pfam13229 491916010005 Chain length determinant protein; Region: Wzz; pfam02706 491916010006 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 491916010007 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 491916010008 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 491916010009 P-loop; other site 491916010010 Magnesium ion binding site [ion binding]; other site 491916010011 polysaccharide export protein Wza; Provisional; Region: PRK15078 491916010012 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 491916010013 SLBB domain; Region: SLBB; pfam10531 491916010014 O-Antigen ligase; Region: Wzy_C; pfam04932 491916010015 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 491916010016 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 491916010017 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 491916010018 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 491916010019 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 491916010020 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491916010021 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 491916010022 active site 491916010023 metal binding site [ion binding]; metal-binding site 491916010024 KTSC domain; Region: KTSC; pfam13619 491916010025 Predicted esterase [General function prediction only]; Region: COG0400 491916010026 Serine hydrolase (FSH1); Region: FSH1; pfam03959 491916010027 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 491916010028 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916010029 Zn binding site [ion binding]; other site 491916010030 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 491916010031 Zn binding site [ion binding]; other site 491916010032 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 491916010033 ligand binding site [chemical binding]; other site 491916010034 active site 491916010035 UGI interface [polypeptide binding]; other site 491916010036 catalytic site [active] 491916010037 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 491916010038 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 491916010039 active site 491916010040 substrate binding site [chemical binding]; other site 491916010041 metal binding site [ion binding]; metal-binding site 491916010042 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 491916010043 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 491916010044 Substrate binding site; other site 491916010045 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 491916010046 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491916010047 putative catalytic site [active] 491916010048 putative metal binding site [ion binding]; other site 491916010049 putative phosphate binding site [ion binding]; other site 491916010050 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916010051 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 491916010052 putative NAD(P) binding site [chemical binding]; other site 491916010053 active site 491916010054 putative substrate binding site [chemical binding]; other site 491916010055 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 491916010056 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916010057 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 491916010058 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 491916010059 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 491916010060 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916010061 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491916010062 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 491916010063 Walker A/P-loop; other site 491916010064 ATP binding site [chemical binding]; other site 491916010065 Q-loop/lid; other site 491916010066 ABC transporter signature motif; other site 491916010067 Walker B; other site 491916010068 D-loop; other site 491916010069 H-loop/switch region; other site 491916010070 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 491916010071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916010072 Walker A/P-loop; other site 491916010073 ATP binding site [chemical binding]; other site 491916010074 Q-loop/lid; other site 491916010075 ABC transporter signature motif; other site 491916010076 Walker B; other site 491916010077 D-loop; other site 491916010078 H-loop/switch region; other site 491916010079 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 491916010080 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 491916010081 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 491916010082 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 491916010083 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 491916010084 Predicted membrane protein [Function unknown]; Region: COG2510 491916010085 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916010086 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916010087 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916010089 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 491916010090 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916010091 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916010092 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 491916010093 apolar tunnel; other site 491916010094 heme binding site [chemical binding]; other site 491916010095 dimerization interface [polypeptide binding]; other site 491916010096 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 491916010097 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 491916010098 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 491916010099 TonB C terminal; Region: TonB_2; pfam13103 491916010100 Hemin uptake protein hemP; Region: hemP; pfam10636 491916010101 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 491916010102 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 491916010103 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 491916010104 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 491916010105 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 491916010106 putative hemin binding site; other site 491916010107 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 491916010108 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; cl00462 491916010109 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 491916010110 ABC-ATPase subunit interface; other site 491916010111 dimer interface [polypeptide binding]; other site 491916010112 putative PBP binding regions; other site 491916010113 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 491916010114 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491916010115 Walker A/P-loop; other site 491916010116 ATP binding site [chemical binding]; other site 491916010117 Q-loop/lid; other site 491916010118 ABC transporter signature motif; other site 491916010119 Walker B; other site 491916010120 D-loop; other site 491916010121 H-loop/switch region; other site 491916010122 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 491916010123 RNA polymerase sigma factor; Provisional; Region: PRK12516 491916010124 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916010125 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 491916010126 DNA binding residues [nucleotide binding] 491916010127 two-component response regulator; Provisional; Region: PRK09191 491916010128 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 491916010129 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 491916010130 active site 491916010131 phosphorylation site [posttranslational modification] 491916010132 intermolecular recognition site; other site 491916010133 dimerization interface [polypeptide binding]; other site 491916010134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 491916010135 HWE histidine kinase; Region: HWE_HK; pfam07536 491916010136 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 491916010137 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491916010138 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 491916010139 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 491916010140 homodimer interface [polypeptide binding]; other site 491916010141 active site 491916010142 FMN binding site [chemical binding]; other site 491916010143 substrate binding site [chemical binding]; other site 491916010144 4Fe-4S binding domain; Region: Fer4_6; pfam12837 491916010145 4Fe-4S binding domain; Region: Fer4; pfam00037 491916010146 SEC-C motif; Region: SEC-C; pfam02810 491916010147 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 491916010148 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 491916010149 conserved cys residue [active] 491916010150 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916010151 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 491916010152 active site residue [active] 491916010153 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 491916010154 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 491916010155 putative NAD(P) binding site [chemical binding]; other site 491916010156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916010157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916010158 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 491916010159 putative effector binding pocket; other site 491916010160 putative dimerization interface [polypeptide binding]; other site 491916010161 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 491916010162 heme binding pocket [chemical binding]; other site 491916010163 heme ligand [chemical binding]; other site 491916010164 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 491916010165 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 491916010166 putative active site [active] 491916010167 heme pocket [chemical binding]; other site 491916010168 GAF domain; Region: GAF; pfam01590 491916010169 Phytochrome region; Region: PHY; pfam00360 491916010170 HWE histidine kinase; Region: HWE_HK; pfam07536 491916010171 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916010172 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 491916010173 active site 491916010174 phosphorylation site [posttranslational modification] 491916010175 intermolecular recognition site; other site 491916010176 dimerization interface [polypeptide binding]; other site 491916010177 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 491916010178 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916010179 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 491916010180 allantoate amidohydrolase; Reviewed; Region: PRK12893 491916010181 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 491916010182 active site 491916010183 metal binding site [ion binding]; metal-binding site 491916010184 dimer interface [polypeptide binding]; other site 491916010185 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 491916010186 putative active site [active] 491916010187 phenylhydantoinase; Validated; Region: PRK08323 491916010188 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 491916010189 tetramer interface [polypeptide binding]; other site 491916010190 active site 491916010191 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: COG4101 491916010192 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491916010193 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491916010194 Walker A/P-loop; other site 491916010195 ATP binding site [chemical binding]; other site 491916010196 Q-loop/lid; other site 491916010197 ABC transporter signature motif; other site 491916010198 Walker B; other site 491916010199 D-loop; other site 491916010200 H-loop/switch region; other site 491916010201 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491916010202 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 491916010203 dimer interface [polypeptide binding]; other site 491916010204 conserved gate region; other site 491916010205 putative PBP binding loops; other site 491916010206 ABC-ATPase subunit interface; other site 491916010207 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491916010208 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 491916010209 dimer interface [polypeptide binding]; other site 491916010210 conserved gate region; other site 491916010211 putative PBP binding loops; other site 491916010212 ABC-ATPase subunit interface; other site 491916010213 NMT1/THI5 like; Region: NMT1; pfam09084 491916010214 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 491916010215 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916010216 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916010217 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491916010218 ABC-2 type transporter; Region: ABC2_membrane; cl17235 491916010219 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 491916010220 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 491916010221 UreF; Region: UreF; pfam01730 491916010222 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; cl03727 491916010223 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 491916010224 dimer interface [polypeptide binding]; other site 491916010225 catalytic residues [active] 491916010226 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916010227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916010228 metal binding site [ion binding]; metal-binding site 491916010229 active site 491916010230 I-site; other site 491916010231 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 491916010232 urease subunit alpha; Reviewed; Region: ureC; PRK13207 491916010233 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 491916010234 subunit interactions [polypeptide binding]; other site 491916010235 active site 491916010236 flap region; other site 491916010237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 491916010238 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 491916010239 gamma-beta subunit interface [polypeptide binding]; other site 491916010240 alpha-beta subunit interface [polypeptide binding]; other site 491916010241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 491916010242 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 491916010243 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 491916010244 alpha-gamma subunit interface [polypeptide binding]; other site 491916010245 beta-gamma subunit interface [polypeptide binding]; other site 491916010246 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 491916010247 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 491916010248 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491916010249 Walker A/P-loop; other site 491916010250 ATP binding site [chemical binding]; other site 491916010251 Q-loop/lid; other site 491916010252 ABC transporter signature motif; other site 491916010253 Walker B; other site 491916010254 D-loop; other site 491916010255 H-loop/switch region; other site 491916010256 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 491916010257 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491916010258 Walker A/P-loop; other site 491916010259 ATP binding site [chemical binding]; other site 491916010260 Q-loop/lid; other site 491916010261 ABC transporter signature motif; other site 491916010262 Walker B; other site 491916010263 D-loop; other site 491916010264 H-loop/switch region; other site 491916010265 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 491916010266 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 491916010267 TM-ABC transporter signature motif; other site 491916010268 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 491916010269 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916010270 TM-ABC transporter signature motif; other site 491916010271 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 491916010272 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 491916010273 putative ligand binding site [chemical binding]; other site 491916010274 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 491916010275 active site 491916010276 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 491916010277 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 491916010278 Na binding site [ion binding]; other site 491916010279 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 491916010280 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916010281 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 491916010282 dimer interface [polypeptide binding]; other site 491916010283 phosphorylation site [posttranslational modification] 491916010284 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 491916010285 ATP binding site [chemical binding]; other site 491916010286 Mg2+ binding site [ion binding]; other site 491916010287 G-X-G motif; other site 491916010288 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916010289 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 491916010290 active site 491916010291 phosphorylation site [posttranslational modification] 491916010292 intermolecular recognition site; other site 491916010293 dimerization interface [polypeptide binding]; other site 491916010294 Response regulator receiver domain; Region: Response_reg; pfam00072 491916010295 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 491916010296 active site 491916010297 phosphorylation site [posttranslational modification] 491916010298 intermolecular recognition site; other site 491916010299 dimerization interface [polypeptide binding]; other site 491916010300 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916010301 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 491916010302 DNA binding residues [nucleotide binding] 491916010303 dimerization interface [polypeptide binding]; other site 491916010304 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 491916010305 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 491916010306 dimerization interface [polypeptide binding]; other site 491916010307 ligand binding site [chemical binding]; other site 491916010308 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 491916010309 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491916010310 Walker A/P-loop; other site 491916010311 ATP binding site [chemical binding]; other site 491916010312 Q-loop/lid; other site 491916010313 ABC transporter signature motif; other site 491916010314 Walker B; other site 491916010315 D-loop; other site 491916010316 H-loop/switch region; other site 491916010317 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916010318 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491916010319 Walker A/P-loop; other site 491916010320 ATP binding site [chemical binding]; other site 491916010321 Q-loop/lid; other site 491916010322 ABC transporter signature motif; other site 491916010323 Walker B; other site 491916010324 D-loop; other site 491916010325 H-loop/switch region; other site 491916010326 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 491916010327 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 491916010328 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 491916010329 TM-ABC transporter signature motif; other site 491916010330 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916010331 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 491916010332 TM-ABC transporter signature motif; other site 491916010333 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 491916010334 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916010335 active site 491916010336 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 491916010337 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 491916010338 Paraquat-inducible protein A; Region: PqiA; pfam04403 491916010339 Predicted acetyltransferase [General function prediction only]; Region: COG2388 491916010340 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916010341 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 491916010342 active site 491916010343 phosphorylation site [posttranslational modification] 491916010344 intermolecular recognition site; other site 491916010345 dimerization interface [polypeptide binding]; other site 491916010346 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 491916010347 DNA binding site [nucleotide binding] 491916010348 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 491916010349 Response regulator receiver domain; Region: Response_reg; pfam00072 491916010350 active site 491916010351 phosphorylation site [posttranslational modification] 491916010352 intermolecular recognition site; other site 491916010353 dimerization interface [polypeptide binding]; other site 491916010354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 491916010355 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 491916010356 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 491916010357 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 491916010358 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 491916010359 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491916010360 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 491916010361 RNA binding surface [nucleotide binding]; other site 491916010362 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491916010363 active site 491916010364 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 491916010365 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 491916010366 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916010367 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 491916010368 DNA binding residues [nucleotide binding] 491916010369 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 491916010370 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 491916010371 GDP-binding site [chemical binding]; other site 491916010372 ACT binding site; other site 491916010373 IMP binding site; other site 491916010374 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916010375 EamA-like transporter family; Region: EamA; pfam00892 491916010376 EamA-like transporter family; Region: EamA; pfam00892 491916010377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916010378 Coenzyme A binding pocket [chemical binding]; other site 491916010379 PAS fold; Region: PAS_3; pfam08447 491916010380 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916010381 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916010382 metal binding site [ion binding]; metal-binding site 491916010383 active site 491916010384 I-site; other site 491916010385 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 491916010386 ypch01245 491916010387 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491916010388 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916010389 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916010390 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916010391 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 491916010392 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916010393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916010394 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 491916010395 putative effector binding pocket; other site 491916010396 putative dimerization interface [polypeptide binding]; other site 491916010397 short chain dehydrogenase; Provisional; Region: PRK12939 491916010398 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 491916010399 NADP binding site [chemical binding]; other site 491916010400 homodimer interface [polypeptide binding]; other site 491916010401 active site 491916010402 substrate binding site [chemical binding]; other site 491916010403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916010404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916010405 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 491916010406 putative effector binding pocket; other site 491916010407 putative dimerization interface [polypeptide binding]; other site 491916010408 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 491916010409 active site 491916010410 DNA binding site [nucleotide binding] 491916010411 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 491916010412 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491916010413 putative substrate translocation pore; other site 491916010414 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 491916010415 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916010416 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916010417 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916010418 MarR family; Region: MarR; pfam01047 491916010419 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 491916010420 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916010421 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916010422 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916010423 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491916010424 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491916010425 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 491916010426 active site 491916010427 metal binding site [ion binding]; metal-binding site 491916010428 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 491916010429 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491916010430 active site 491916010431 Rrf2 family protein; Region: rrf2_super; TIGR00738 491916010432 Transcriptional regulator; Region: Rrf2; pfam02082 491916010433 short chain dehydrogenase; Provisional; Region: PRK07478 491916010434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916010435 NAD(P) binding site [chemical binding]; other site 491916010436 active site 491916010437 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 491916010438 Cupin domain; Region: Cupin_2; cl17218 491916010439 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916010440 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916010441 Walker A/P-loop; other site 491916010442 ATP binding site [chemical binding]; other site 491916010443 Q-loop/lid; other site 491916010444 ABC transporter signature motif; other site 491916010445 Walker B; other site 491916010446 D-loop; other site 491916010447 H-loop/switch region; other site 491916010448 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916010449 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 491916010450 dimer interface [polypeptide binding]; other site 491916010451 conserved gate region; other site 491916010452 putative PBP binding loops; other site 491916010453 ABC-ATPase subunit interface; other site 491916010454 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 491916010455 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 491916010456 putative PBP binding loops; other site 491916010457 dimer interface [polypeptide binding]; other site 491916010458 ABC-ATPase subunit interface; other site 491916010459 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916010460 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916010461 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 491916010462 non-specific DNA interactions [nucleotide binding]; other site 491916010463 DNA binding site [nucleotide binding] 491916010464 sequence specific DNA binding site [nucleotide binding]; other site 491916010465 putative cAMP binding site [chemical binding]; other site 491916010466 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916010467 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491916010468 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491916010469 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916010470 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916010471 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 491916010472 dimer interface [polypeptide binding]; other site 491916010473 conserved gate region; other site 491916010474 putative PBP binding loops; other site 491916010475 ABC-ATPase subunit interface; other site 491916010476 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916010477 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 491916010478 dimer interface [polypeptide binding]; other site 491916010479 conserved gate region; other site 491916010480 putative PBP binding loops; other site 491916010481 ABC-ATPase subunit interface; other site 491916010482 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 491916010483 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 491916010484 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916010485 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 491916010486 substrate binding site [chemical binding]; other site 491916010487 ATP binding site [chemical binding]; other site 491916010488 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916010489 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916010490 Walker A/P-loop; other site 491916010491 ATP binding site [chemical binding]; other site 491916010492 Q-loop/lid; other site 491916010493 ABC transporter signature motif; other site 491916010494 Walker B; other site 491916010495 D-loop; other site 491916010496 H-loop/switch region; other site 491916010497 TOBE domain; Region: TOBE_2; pfam08402 491916010498 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 491916010499 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 491916010500 NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]; Region: NuoK; COG0713 491916010501 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 491916010502 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916010503 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 491916010504 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916010505 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 491916010506 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916010507 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 491916010508 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491916010509 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 491916010510 NADH dehydrogenase subunit B; Validated; Region: PRK06411 491916010511 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 491916010512 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 491916010513 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 491916010514 NADH dehydrogenase subunit D; Validated; Region: PRK06075 491916010515 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 491916010516 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 491916010517 putative dimer interface [polypeptide binding]; other site 491916010518 [2Fe-2S] cluster binding site [ion binding]; other site 491916010519 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 491916010520 SLBB domain; Region: SLBB; pfam10531 491916010521 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 491916010522 NADH dehydrogenase subunit G; Validated; Region: PRK09129 491916010523 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 491916010524 catalytic loop [active] 491916010525 iron binding site [ion binding]; other site 491916010526 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 491916010527 4Fe-4S binding domain; Region: Fer4; pfam00037 491916010528 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 491916010529 [4Fe-4S] binding site [ion binding]; other site 491916010530 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 491916010531 FOG: CBS domain [General function prediction only]; Region: COG0517 491916010532 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 491916010533 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 491916010534 4Fe-4S binding domain; Region: Fer4; pfam00037 491916010535 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 491916010536 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 491916010537 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 491916010538 RNA binding surface [nucleotide binding]; other site 491916010539 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 491916010540 pseudouridine synthase; Region: TIGR00093 491916010541 active site 491916010542 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916010543 active site 491916010544 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 491916010545 transmembrane helices; other site 491916010546 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 491916010547 TrkA-C domain; Region: TrkA_C; pfam02080 491916010548 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 491916010549 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 491916010550 ATP binding site [chemical binding]; other site 491916010551 active site 491916010552 substrate binding site [chemical binding]; other site 491916010553 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916010554 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916010555 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916010556 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916010557 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916010558 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 491916010559 Protein export membrane protein; Region: SecD_SecF; cl14618 491916010560 Protein export membrane protein; Region: SecD_SecF; cl14618 491916010561 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 491916010562 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916010563 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916010564 DNA binding site [nucleotide binding] 491916010565 domain linker motif; other site 491916010566 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 491916010567 dimerization interface [polypeptide binding]; other site 491916010568 ligand binding site [chemical binding]; other site 491916010569 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 491916010570 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916010571 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 491916010572 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 491916010573 dimer interface [polypeptide binding]; other site 491916010574 conserved gate region; other site 491916010575 putative PBP binding loops; other site 491916010576 ABC-ATPase subunit interface; other site 491916010577 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916010578 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 491916010579 dimer interface [polypeptide binding]; other site 491916010580 conserved gate region; other site 491916010581 putative PBP binding loops; other site 491916010582 ABC-ATPase subunit interface; other site 491916010583 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491916010584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916010585 Walker A/P-loop; other site 491916010586 ATP binding site [chemical binding]; other site 491916010587 Q-loop/lid; other site 491916010588 ABC transporter signature motif; other site 491916010589 Walker B; other site 491916010590 D-loop; other site 491916010591 H-loop/switch region; other site 491916010592 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 491916010593 active site 491916010594 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 491916010595 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 491916010596 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 491916010597 active site 491916010598 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 491916010599 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 491916010600 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 491916010601 metal binding site [ion binding]; metal-binding site 491916010602 putative dimer interface [polypeptide binding]; other site 491916010603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 491916010604 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 491916010605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 491916010606 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491916010607 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 491916010608 active site 491916010609 phosphorylation site [posttranslational modification] 491916010610 intermolecular recognition site; other site 491916010611 dimerization interface [polypeptide binding]; other site 491916010612 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 491916010613 Walker A motif; other site 491916010614 ATP binding site [chemical binding]; other site 491916010615 Walker B motif; other site 491916010616 arginine finger; other site 491916010617 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491916010618 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 491916010619 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 491916010620 dimer interface [polypeptide binding]; other site 491916010621 phosphorylation site [posttranslational modification] 491916010622 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 491916010623 ATP binding site [chemical binding]; other site 491916010624 Mg2+ binding site [ion binding]; other site 491916010625 G-X-G motif; other site 491916010626 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 491916010627 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 491916010628 Moco binding site; other site 491916010629 metal coordination site [ion binding]; other site 491916010630 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 491916010631 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 491916010632 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 491916010633 catalytic core [active] 491916010634 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 491916010635 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916010636 metal binding site [ion binding]; metal-binding site 491916010637 active site 491916010638 I-site; other site 491916010639 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 491916010640 propionate/acetate kinase; Provisional; Region: PRK12379 491916010641 acetate kinase; Provisional; Region: PRK07058 491916010642 putative phosphoketolase; Provisional; Region: PRK05261 491916010643 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 491916010644 TPP-binding site; other site 491916010645 XFP C-terminal domain; Region: XFP_C; pfam09363 491916010646 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 491916010647 nucleoside/Zn binding site; other site 491916010648 dimer interface [polypeptide binding]; other site 491916010649 catalytic motif [active] 491916010650 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 491916010651 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491916010652 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916010653 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 491916010654 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491916010655 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 491916010656 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491916010657 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 491916010658 TM-ABC transporter signature motif; other site 491916010659 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 491916010660 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 491916010661 TM-ABC transporter signature motif; other site 491916010662 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916010663 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491916010664 Walker A/P-loop; other site 491916010665 ATP binding site [chemical binding]; other site 491916010666 Q-loop/lid; other site 491916010667 ABC transporter signature motif; other site 491916010668 Walker B; other site 491916010669 D-loop; other site 491916010670 H-loop/switch region; other site 491916010671 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 491916010672 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491916010673 Walker A/P-loop; other site 491916010674 ATP binding site [chemical binding]; other site 491916010675 Q-loop/lid; other site 491916010676 ABC transporter signature motif; other site 491916010677 Walker B; other site 491916010678 D-loop; other site 491916010679 H-loop/switch region; other site 491916010680 VCBS repeat; Region: VCBS_repeat; TIGR01965 491916010681 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 491916010682 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 491916010683 Ligand Binding Site [chemical binding]; other site 491916010684 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 491916010685 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 491916010686 ligand binding site [chemical binding]; other site 491916010687 NAD binding site [chemical binding]; other site 491916010688 dimerization interface [polypeptide binding]; other site 491916010689 catalytic site [active] 491916010690 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 491916010691 putative L-serine binding site [chemical binding]; other site 491916010692 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 491916010693 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916010694 catalytic residue [active] 491916010695 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 491916010696 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 491916010697 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 491916010698 active site 491916010699 substrate binding site [chemical binding]; other site 491916010700 metal binding site [ion binding]; metal-binding site 491916010701 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 491916010702 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 491916010703 Walker A motif; other site 491916010704 ATP binding site [chemical binding]; other site 491916010705 Walker B motif; other site 491916010706 arginine finger; other site 491916010707 Peptidase family M41; Region: Peptidase_M41; pfam01434 491916010708 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 491916010709 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 491916010710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 491916010711 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 491916010712 TPR motif; other site 491916010713 binding surface 491916010714 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491916010715 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916010716 ligand binding site [chemical binding]; other site 491916010717 translocation protein TolB; Provisional; Region: tolB; PRK05137 491916010718 TolB amino-terminal domain; Region: TolB_N; pfam04052 491916010719 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491916010720 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491916010721 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491916010722 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491916010723 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 491916010724 TolR protein; Region: tolR; TIGR02801 491916010725 TolQ protein; Region: tolQ; TIGR02796 491916010726 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 491916010727 active site 491916010728 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 491916010729 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916010730 NAD binding site [chemical binding]; other site 491916010731 substrate binding site [chemical binding]; other site 491916010732 active site 491916010733 Glycogenin belongs the GT 8 family and initiates the biosynthesis of glycogen; Region: GT8_Glycogenin; cd02537 491916010734 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 491916010735 substrate binding site; other site 491916010736 Manganese binding site; other site 491916010737 dimer interface; other site 491916010738 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916010739 extended (e) SDRs; Region: SDR_e; cd08946 491916010740 NAD(P) binding site [chemical binding]; other site 491916010741 active site 491916010742 substrate binding site [chemical binding]; other site 491916010743 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 491916010744 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 491916010745 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 491916010746 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491916010747 putative active site [active] 491916010748 metal binding site [ion binding]; metal-binding site 491916010749 homodimer binding site [polypeptide binding]; other site 491916010750 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 491916010751 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 491916010752 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 491916010753 hypothetical protein; Validated; Region: PRK00110 491916010754 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 491916010755 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 491916010756 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 491916010757 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 491916010758 dimerization interface [polypeptide binding]; other site 491916010759 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916010760 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 491916010761 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916010762 dimer interface [polypeptide binding]; other site 491916010763 putative CheW interface [polypeptide binding]; other site 491916010764 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 491916010765 active site 491916010766 putative DNA-binding cleft [nucleotide binding]; other site 491916010767 dimer interface [polypeptide binding]; other site 491916010768 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 491916010769 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-like; cd09875 491916010770 putative active site [active] 491916010771 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 491916010772 RuvA N terminal domain; Region: RuvA_N; pfam01330 491916010773 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 491916010774 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 491916010775 Walker A motif; other site 491916010776 ATP binding site [chemical binding]; other site 491916010777 Walker B motif; other site 491916010778 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 491916010779 phosphodiesterase YaeI; Provisional; Region: PRK11340 491916010780 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 491916010781 putative active site [active] 491916010782 putative metal binding site [ion binding]; other site 491916010783 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_29; cd04688 491916010784 nudix motif; other site 491916010785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 491916010786 DinB superfamily; Region: DinB_2; pfam12867 491916010787 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 491916010788 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 491916010789 Predicted integral membrane protein [Function unknown]; Region: COG0392 491916010790 Uncharacterized conserved protein [Function unknown]; Region: COG2898 491916010791 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 491916010792 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 491916010793 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491916010794 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 491916010795 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491916010796 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 491916010797 hydrophobic ligand binding site; other site 491916010798 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 491916010799 dimerization interface [polypeptide binding]; other site 491916010800 putative DNA binding site [nucleotide binding]; other site 491916010801 putative Zn2+ binding site [ion binding]; other site 491916010802 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 491916010803 non-specific DNA binding site [nucleotide binding]; other site 491916010804 salt bridge; other site 491916010805 sequence-specific DNA binding site [nucleotide binding]; other site 491916010806 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916010807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916010808 NAD(P) binding site [chemical binding]; other site 491916010809 active site 491916010810 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 491916010811 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 491916010812 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 491916010813 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 491916010814 TPP-binding site [chemical binding]; other site 491916010815 dimer interface [polypeptide binding]; other site 491916010816 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 491916010817 PYR/PP interface [polypeptide binding]; other site 491916010818 dimer interface [polypeptide binding]; other site 491916010819 TPP binding site [chemical binding]; other site 491916010820 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491916010821 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 491916010822 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 491916010823 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 491916010824 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 491916010825 Transporter associated domain; Region: CorC_HlyC; smart01091 491916010826 Phosphoglycerate kinase; Region: PGK; pfam00162 491916010827 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 491916010828 substrate binding site [chemical binding]; other site 491916010829 hinge regions; other site 491916010830 ADP binding site [chemical binding]; other site 491916010831 catalytic site [active] 491916010832 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 491916010833 active site 491916010834 intersubunit interface [polypeptide binding]; other site 491916010835 catalytic residue [active] 491916010836 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 491916010837 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 491916010838 putative substrate translocation pore; other site 491916010839 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 491916010840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 491916010841 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 491916010842 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 491916010843 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916010844 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 491916010845 Walker A/P-loop; other site 491916010846 ATP binding site [chemical binding]; other site 491916010847 Q-loop/lid; other site 491916010848 ABC transporter signature motif; other site 491916010849 Walker B; other site 491916010850 D-loop; other site 491916010851 H-loop/switch region; other site 491916010852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 491916010853 Uncharacterized conserved protein [Function unknown]; Region: COG3422 491916010854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 491916010855 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 491916010856 hypothetical protein; Validated; Region: PRK09039 491916010857 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916010858 ligand binding site [chemical binding]; other site 491916010859 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916010860 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 491916010861 active site 491916010862 dimerization interface [polypeptide binding]; other site 491916010863 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916010864 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916010865 DNA-binding site [nucleotide binding]; DNA binding site 491916010866 FCD domain; Region: FCD; pfam07729 491916010867 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 491916010868 putative active site [active] 491916010869 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 491916010870 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 491916010871 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 491916010872 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 491916010873 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491916010874 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 491916010875 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 491916010876 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 491916010877 carboxyltransferase (CT) interaction site; other site 491916010878 biotinylation site [posttranslational modification]; other site 491916010879 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 491916010880 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 491916010881 active site 491916010882 phosphorylation site [posttranslational modification] 491916010883 intermolecular recognition site; other site 491916010884 CheB methylesterase; Region: CheB_methylest; pfam01339 491916010885 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 491916010886 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 491916010887 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 491916010888 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 491916010889 putative CheA interaction surface; other site 491916010890 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 491916010891 dimerization interface [polypeptide binding]; other site 491916010892 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916010893 dimer interface [polypeptide binding]; other site 491916010894 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 491916010895 putative CheW interface [polypeptide binding]; other site 491916010896 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 491916010897 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 491916010898 dimerization interface [polypeptide binding]; other site 491916010899 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916010900 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916010901 dimer interface [polypeptide binding]; other site 491916010902 putative CheW interface [polypeptide binding]; other site 491916010903 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 491916010904 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 491916010905 dimerization interface [polypeptide binding]; other site 491916010906 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916010907 dimer interface [polypeptide binding]; other site 491916010908 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 491916010909 putative CheW interface [polypeptide binding]; other site 491916010910 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 491916010911 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 491916010912 putative binding surface; other site 491916010913 active site 491916010914 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 491916010915 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 491916010916 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 491916010917 ATP binding site [chemical binding]; other site 491916010918 Mg2+ binding site [ion binding]; other site 491916010919 G-X-G motif; other site 491916010920 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 491916010921 Response regulator receiver domain; Region: Response_reg; pfam00072 491916010922 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 491916010923 active site 491916010924 phosphorylation site [posttranslational modification] 491916010925 intermolecular recognition site; other site 491916010926 dimerization interface [polypeptide binding]; other site 491916010927 STAS domain; Region: STAS_2; pfam13466 491916010928 methyl-accepting protein IV; Provisional; Region: PRK09793 491916010929 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 491916010930 Sel1-like repeats; Region: SEL1; smart00671 491916010931 Sel1-like repeats; Region: SEL1; smart00671 491916010932 Sel1-like repeats; Region: SEL1; smart00671 491916010933 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 491916010934 thiamine phosphate binding site [chemical binding]; other site 491916010935 active site 491916010936 pyrophosphate binding site [ion binding]; other site 491916010937 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491916010938 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 491916010939 dimerization interface [polypeptide binding]; other site 491916010940 putative DNA binding site [nucleotide binding]; other site 491916010941 putative Zn2+ binding site [ion binding]; other site 491916010942 Uncharacterized small protein [Function unknown]; Region: COG5570 491916010943 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 491916010944 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 491916010945 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 491916010946 ATP-grasp domain; Region: ATP-grasp; pfam02222 491916010947 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 491916010948 TPR repeat; Region: TPR_11; pfam13414 491916010949 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 491916010950 TPR motif; other site 491916010951 binding surface 491916010952 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916010953 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 491916010954 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 491916010955 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 491916010956 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 491916010957 tetramer interface [polypeptide binding]; other site 491916010958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916010959 catalytic residue [active] 491916010960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916010961 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 491916010962 dimerization interface [polypeptide binding]; other site 491916010963 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 491916010964 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491916010965 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916010966 pyruvate kinase; Provisional; Region: PRK06247 491916010967 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 491916010968 domain interfaces; other site 491916010969 active site 491916010970 Predicted integral membrane protein [Function unknown]; Region: COG5480 491916010971 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 491916010972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 491916010973 hypothetical protein; Provisional; Region: PRK13694 491916010974 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491916010975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916010976 Coenzyme A binding pocket [chemical binding]; other site 491916010977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 491916010978 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 491916010979 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491916010980 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 491916010981 active site 491916010982 phosphorylation site [posttranslational modification] 491916010983 intermolecular recognition site; other site 491916010984 dimerization interface [polypeptide binding]; other site 491916010985 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 491916010986 Walker A motif; other site 491916010987 ATP binding site [chemical binding]; other site 491916010988 Walker B motif; other site 491916010989 arginine finger; other site 491916010990 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491916010991 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 491916010992 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 491916010993 active site 491916010994 Zn binding site [ion binding]; other site 491916010995 aminodeoxychorismate synthase; Provisional; Region: PRK07508 491916010996 chorismate binding enzyme; Region: Chorismate_bind; cl10555 491916010997 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 491916010998 hypothetical protein; Provisional; Region: PRK07546 491916010999 substrate-cofactor binding pocket; other site 491916011000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916011001 catalytic residue [active] 491916011002 YCII-related domain; Region: YCII; cl00999 491916011003 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 491916011004 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 491916011005 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 491916011006 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 491916011007 active site 491916011008 metal binding site [ion binding]; metal-binding site 491916011009 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 491916011010 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 491916011011 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491916011012 ferrochelatase; Reviewed; Region: hemH; PRK00035 491916011013 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 491916011014 C-terminal domain interface [polypeptide binding]; other site 491916011015 active site 491916011016 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 491916011017 active site 491916011018 N-terminal domain interface [polypeptide binding]; other site 491916011019 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 491916011020 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 491916011021 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 491916011022 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 491916011023 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 491916011024 putative active site [active] 491916011025 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 491916011026 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 491916011027 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 491916011028 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 491916011029 active site 491916011030 tetramer interface; other site 491916011031 Transglycosylase SLT domain; Region: SLT_2; pfam13406 491916011032 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 491916011033 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491916011034 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491916011035 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 491916011036 active site 491916011037 catalytic triad [active] 491916011038 oxyanion hole [active] 491916011039 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 491916011040 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491916011041 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 491916011042 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 491916011043 active site 491916011044 dimer interface [polypeptide binding]; other site 491916011045 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 491916011046 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 491916011047 active site 491916011048 FMN binding site [chemical binding]; other site 491916011049 substrate binding site [chemical binding]; other site 491916011050 3Fe-4S cluster binding site [ion binding]; other site 491916011051 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 491916011052 domain interface; other site 491916011053 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 491916011054 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 491916011055 tetramer interface [polypeptide binding]; other site 491916011056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916011057 catalytic residue [active] 491916011058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916011059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916011060 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 491916011061 dimerization interface [polypeptide binding]; other site 491916011062 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 491916011063 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 491916011064 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 491916011065 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 491916011066 putative dimer interface [polypeptide binding]; other site 491916011067 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 491916011068 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916011069 TAP-like protein; Region: Abhydrolase_4; pfam08386 491916011070 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916011071 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 491916011072 active site 491916011073 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 491916011074 Uncharacterized conserved protein [Function unknown]; Region: COG4983 491916011075 Helix-turn-helix domain; Region: HTH_17; cl17695 491916011076 yich00036; insertion sequence:Integrase, catalytic core, phage 491916011077 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 491916011078 Response regulator receiver domain; Region: Response_reg; pfam00072 491916011079 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 491916011080 active site 491916011081 phosphorylation site [posttranslational modification] 491916011082 intermolecular recognition site; other site 491916011083 dimerization interface [polypeptide binding]; other site 491916011084 Porin subfamily; Region: Porin_2; pfam02530 491916011085 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 491916011086 hypothetical protein; Provisional; Region: PRK14013 491916011087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 491916011088 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 491916011089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 491916011090 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491916011091 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916011092 cyclase homology domain; Region: CHD; cd07302 491916011093 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916011094 nucleotidyl binding site; other site 491916011095 metal binding site [ion binding]; metal-binding site 491916011096 dimer interface [polypeptide binding]; other site 491916011097 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916011098 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 491916011099 TPR motif; other site 491916011100 binding surface 491916011101 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491916011102 TPR repeat; Region: TPR_11; pfam13414 491916011103 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 491916011104 TPR motif; other site 491916011105 binding surface 491916011106 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916011107 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 491916011108 active site 491916011109 phosphorylation site [posttranslational modification] 491916011110 intermolecular recognition site; other site 491916011111 dimerization interface [polypeptide binding]; other site 491916011112 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 491916011113 DNA binding site [nucleotide binding] 491916011114 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 491916011115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916011116 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 491916011117 dimer interface [polypeptide binding]; other site 491916011118 phosphorylation site [posttranslational modification] 491916011119 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 491916011120 ATP binding site [chemical binding]; other site 491916011121 Mg2+ binding site [ion binding]; other site 491916011122 G-X-G motif; other site 491916011123 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 491916011124 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 491916011125 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 491916011126 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 491916011127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 491916011128 Uncharacterized conserved protein [Function unknown]; Region: COG2308 491916011129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 491916011130 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 491916011131 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 491916011132 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 491916011133 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 491916011134 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 491916011135 von Willebrand factor type A domain; Region: VWA_2; pfam13519 491916011136 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 491916011137 homodimer interface [polypeptide binding]; other site 491916011138 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 491916011139 active site pocket [active] 491916011140 glycogen branching enzyme; Provisional; Region: PRK05402 491916011141 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 491916011142 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 491916011143 active site 491916011144 catalytic site [active] 491916011145 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 491916011146 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 491916011147 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 491916011148 ligand binding site; other site 491916011149 oligomer interface; other site 491916011150 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 491916011151 dimer interface [polypeptide binding]; other site 491916011152 N-terminal domain interface [polypeptide binding]; other site 491916011153 sulfate 1 binding site; other site 491916011154 glycogen synthase; Provisional; Region: glgA; PRK00654 491916011155 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 491916011156 ADP-binding pocket [chemical binding]; other site 491916011157 homodimer interface [polypeptide binding]; other site 491916011158 phosphoglucomutase; Region: PLN02307 491916011159 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 491916011160 substrate binding site [chemical binding]; other site 491916011161 dimer interface [polypeptide binding]; other site 491916011162 active site 491916011163 metal binding site [ion binding]; metal-binding site 491916011164 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 491916011165 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 491916011166 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 491916011167 active site 491916011168 catalytic site [active] 491916011169 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 491916011170 putative active site [active] 491916011171 putative catalytic site [active] 491916011172 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916011173 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 491916011174 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 491916011175 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 491916011176 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 491916011177 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491916011178 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 491916011179 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 491916011180 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916011181 FecR protein; Region: FecR; pfam04773 491916011182 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 491916011183 CHASE2 domain; Region: CHASE2; pfam05226 491916011184 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916011185 cyclase homology domain; Region: CHD; cd07302 491916011186 nucleotidyl binding site; other site 491916011187 metal binding site [ion binding]; metal-binding site 491916011188 dimer interface [polypeptide binding]; other site 491916011189 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 491916011190 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916011191 cyclase homology domain; Region: CHD; cd07302 491916011192 nucleotidyl binding site; other site 491916011193 metal binding site [ion binding]; metal-binding site 491916011194 dimer interface [polypeptide binding]; other site 491916011195 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 491916011196 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 491916011197 TPR motif; other site 491916011198 TPR repeat; Region: TPR_11; pfam13414 491916011199 binding surface 491916011200 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 491916011201 binding surface 491916011202 TPR motif; other site 491916011203 TPR repeat; Region: TPR_11; pfam13414 491916011204 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491916011205 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 491916011206 binding surface 491916011207 TPR motif; other site 491916011208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 491916011209 HWE histidine kinase; Region: HWE_HK; smart00911 491916011210 Protein of unknown function (DUF992); Region: DUF992; pfam06186 491916011211 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 491916011212 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 491916011213 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 491916011214 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 491916011215 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 491916011216 ligand binding site [chemical binding]; other site 491916011217 homodimer interface [polypeptide binding]; other site 491916011218 NAD(P) binding site [chemical binding]; other site 491916011219 trimer interface B [polypeptide binding]; other site 491916011220 trimer interface A [polypeptide binding]; other site 491916011221 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 491916011222 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 491916011223 PAS domain; Region: PAS; smart00091 491916011224 PAS fold; Region: PAS_7; pfam12860 491916011225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916011226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916011227 metal binding site [ion binding]; metal-binding site 491916011228 active site 491916011229 I-site; other site 491916011230 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 491916011231 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 491916011232 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 491916011233 DctM-like transporters; Region: DctM; pfam06808 491916011234 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 491916011235 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491916011236 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 491916011237 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 491916011238 catalytic triad [active] 491916011239 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 491916011240 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 491916011241 putative ligand binding site [chemical binding]; other site 491916011242 NAD binding site [chemical binding]; other site 491916011243 catalytic site [active] 491916011244 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916011245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916011246 DNA binding site [nucleotide binding] 491916011247 domain linker motif; other site 491916011248 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 491916011249 putative dimerization interface [polypeptide binding]; other site 491916011250 putative ligand binding site [chemical binding]; other site 491916011251 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916011252 MarR family; Region: MarR; pfam01047 491916011253 Creatinine amidohydrolase; Region: Creatininase; pfam02633 491916011254 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 491916011255 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 491916011256 P-loop, Walker A motif; other site 491916011257 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 491916011258 Base recognition motif; other site 491916011259 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 491916011260 FOG: WD40 repeat [General function prediction only]; Region: COG2319 491916011261 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 491916011262 structural tetrad; other site 491916011263 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 491916011264 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 491916011265 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 491916011266 trimer interface [polypeptide binding]; other site 491916011267 active site 491916011268 substrate binding site [chemical binding]; other site 491916011269 CoA binding site [chemical binding]; other site 491916011270 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916011271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916011272 metal binding site [ion binding]; metal-binding site 491916011273 active site 491916011274 I-site; other site 491916011275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916011276 Coenzyme A binding pocket [chemical binding]; other site 491916011277 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 491916011278 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 491916011279 active site 491916011280 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491916011281 dimer interface [polypeptide binding]; other site 491916011282 catalytic residues [active] 491916011283 substrate binding site [chemical binding]; other site 491916011284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916011285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916011286 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 491916011287 putative effector binding pocket; other site 491916011288 dimerization interface [polypeptide binding]; other site 491916011289 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 491916011290 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 491916011291 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491916011292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491916011293 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 491916011294 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 491916011295 putative metal binding site [ion binding]; other site 491916011296 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 491916011297 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 491916011298 active site 491916011299 intersubunit interface [polypeptide binding]; other site 491916011300 catalytic residue [active] 491916011301 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 491916011302 putative active site [active] 491916011303 putative metal binding residues [ion binding]; other site 491916011304 signature motif; other site 491916011305 putative dimer interface [polypeptide binding]; other site 491916011306 putative phosphate binding site [ion binding]; other site 491916011307 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 491916011308 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 491916011309 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 491916011310 active site residue [active] 491916011311 CHASE4 domain; Region: CHASE4; pfam05228 491916011312 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916011313 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916011314 metal binding site [ion binding]; metal-binding site 491916011315 active site 491916011316 I-site; other site 491916011317 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 491916011318 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 491916011319 beta-galactosidase; Region: BGL; TIGR03356 491916011320 Predicted membrane protein [Function unknown]; Region: COG2259 491916011321 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916011322 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916011323 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916011324 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916011325 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 491916011326 AP (apurinic/apyrimidinic) site pocket; other site 491916011327 DNA interaction; other site 491916011328 Metal-binding active site; metal-binding site 491916011329 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 491916011330 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916011331 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 491916011332 putative ligand binding site [chemical binding]; other site 491916011333 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916011334 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 491916011335 TM-ABC transporter signature motif; other site 491916011336 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916011337 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916011338 Walker A/P-loop; other site 491916011339 ATP binding site [chemical binding]; other site 491916011340 Q-loop/lid; other site 491916011341 ABC transporter signature motif; other site 491916011342 Walker B; other site 491916011343 D-loop; other site 491916011344 H-loop/switch region; other site 491916011345 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916011346 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916011347 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916011348 DNA binding site [nucleotide binding] 491916011349 domain linker motif; other site 491916011350 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 491916011351 dimerization interface [polypeptide binding]; other site 491916011352 ligand binding site [chemical binding]; other site 491916011353 xylose isomerase; Provisional; Region: PRK05474 491916011354 xylose isomerase; Region: xylose_isom_A; TIGR02630 491916011355 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 491916011356 N- and C-terminal domain interface [polypeptide binding]; other site 491916011357 D-xylulose kinase; Region: XylB; TIGR01312 491916011358 active site 491916011359 MgATP binding site [chemical binding]; other site 491916011360 catalytic site [active] 491916011361 metal binding site [ion binding]; metal-binding site 491916011362 xylulose binding site [chemical binding]; other site 491916011363 homodimer interface [polypeptide binding]; other site 491916011364 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916011365 DNA binding site [nucleotide binding] 491916011366 domain linker motif; other site 491916011367 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 491916011368 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916011369 putative ligand binding site [chemical binding]; other site 491916011370 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491916011371 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 491916011372 putative substrate translocation pore; other site 491916011373 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 491916011374 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 491916011375 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916011376 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916011377 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916011378 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916011379 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 491916011380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916011381 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916011382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916011383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 491916011384 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 491916011385 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 491916011386 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 491916011387 HIGH motif; other site 491916011388 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 491916011389 active site 491916011390 KMSKS motif; other site 491916011391 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 491916011392 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 491916011393 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 491916011394 active site residue [active] 491916011395 dimer interface [polypeptide binding]; other site 491916011396 putative anticodon binding site; other site 491916011397 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 491916011398 motif 1; other site 491916011399 active site 491916011400 motif 2; other site 491916011401 motif 3; other site 491916011402 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916011403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916011404 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 491916011405 putative substrate binding pocket [chemical binding]; other site 491916011406 dimerization interface [polypeptide binding]; other site 491916011407 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916011408 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916011409 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491916011410 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916011411 Walker A/P-loop; other site 491916011412 ATP binding site [chemical binding]; other site 491916011413 Q-loop/lid; other site 491916011414 ABC transporter signature motif; other site 491916011415 Walker B; other site 491916011416 D-loop; other site 491916011417 H-loop/switch region; other site 491916011418 TOBE domain; Region: TOBE_2; pfam08402 491916011419 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 491916011420 putative PBP binding loops; other site 491916011421 dimer interface [polypeptide binding]; other site 491916011422 ABC-ATPase subunit interface; other site 491916011423 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916011424 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 491916011425 dimer interface [polypeptide binding]; other site 491916011426 conserved gate region; other site 491916011427 putative PBP binding loops; other site 491916011428 ABC-ATPase subunit interface; other site 491916011429 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 491916011430 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 491916011431 tetrameric interface [polypeptide binding]; other site 491916011432 NAD binding site [chemical binding]; other site 491916011433 catalytic residues [active] 491916011434 substrate binding site [chemical binding]; other site 491916011435 Predicted membrane protein [Function unknown]; Region: COG2259 491916011436 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 491916011437 transaldolase-like protein; Provisional; Region: PTZ00411 491916011438 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 491916011439 active site 491916011440 dimer interface [polypeptide binding]; other site 491916011441 catalytic residue [active] 491916011442 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491916011443 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 491916011444 DNA binding residues [nucleotide binding] 491916011445 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491916011446 Helix-turn-helix domain; Region: HTH_18; pfam12833 491916011447 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 491916011448 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 491916011449 DNA binding site [nucleotide binding] 491916011450 active site 491916011451 Integral membrane protein [Function unknown]; Region: COG5488 491916011452 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 491916011453 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 491916011454 minor groove reading motif; other site 491916011455 helix-hairpin-helix signature motif; other site 491916011456 substrate binding pocket [chemical binding]; other site 491916011457 active site 491916011458 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 491916011459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916011460 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 491916011461 putative dimer interface [polypeptide binding]; other site 491916011462 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916011463 CysZ-like protein; Reviewed; Region: PRK12768 491916011464 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 491916011465 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 491916011466 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 491916011467 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 491916011468 N- and C-terminal domain interface [polypeptide binding]; other site 491916011469 active site 491916011470 MgATP binding site [chemical binding]; other site 491916011471 catalytic site [active] 491916011472 metal binding site [ion binding]; metal-binding site 491916011473 carbohydrate binding site [chemical binding]; other site 491916011474 putative homodimer interface [polypeptide binding]; other site 491916011475 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 491916011476 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 491916011477 motif II; other site 491916011478 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 491916011479 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 491916011480 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 491916011481 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916011482 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916011483 Walker A/P-loop; other site 491916011484 ATP binding site [chemical binding]; other site 491916011485 Q-loop/lid; other site 491916011486 ABC transporter signature motif; other site 491916011487 Walker B; other site 491916011488 D-loop; other site 491916011489 H-loop/switch region; other site 491916011490 TOBE domain; Region: TOBE_2; pfam08402 491916011491 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916011492 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 491916011493 dimer interface [polypeptide binding]; other site 491916011494 conserved gate region; other site 491916011495 putative PBP binding loops; other site 491916011496 ABC-ATPase subunit interface; other site 491916011497 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 491916011498 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 491916011499 putative PBP binding loops; other site 491916011500 ABC-ATPase subunit interface; other site 491916011501 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916011502 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916011503 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491916011504 MarR family; Region: MarR_2; cl17246 491916011505 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491916011506 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 491916011507 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916011508 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491916011509 nucleotide binding site [chemical binding]; other site 491916011510 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 491916011511 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 491916011512 active site 491916011513 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491916011514 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916011515 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916011516 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916011517 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916011518 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916011519 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 491916011520 short chain dehydrogenase; Provisional; Region: PRK07063 491916011521 classical (c) SDRs; Region: SDR_c; cd05233 491916011522 NAD(P) binding site [chemical binding]; other site 491916011523 active site 491916011524 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 491916011525 active site 491916011526 catalytic residues [active] 491916011527 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916011528 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 491916011529 TM-ABC transporter signature motif; other site 491916011530 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 491916011531 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916011532 Walker A/P-loop; other site 491916011533 ATP binding site [chemical binding]; other site 491916011534 Q-loop/lid; other site 491916011535 ABC transporter signature motif; other site 491916011536 Walker B; other site 491916011537 D-loop; other site 491916011538 H-loop/switch region; other site 491916011539 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916011540 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 491916011541 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 491916011542 ligand binding site [chemical binding]; other site 491916011543 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916011544 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916011545 DNA-binding site [nucleotide binding]; DNA binding site 491916011546 FCD domain; Region: FCD; pfam07729 491916011547 galactonate dehydratase; Provisional; Region: PRK14017 491916011548 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 491916011549 putative active site pocket [active] 491916011550 putative metal binding site [ion binding]; other site 491916011551 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916011552 classical (c) SDRs; Region: SDR_c; cd05233 491916011553 NAD(P) binding site [chemical binding]; other site 491916011554 active site 491916011555 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916011556 cyclase homology domain; Region: CHD; cd07302 491916011557 nucleotidyl binding site; other site 491916011558 metal binding site [ion binding]; metal-binding site 491916011559 dimer interface [polypeptide binding]; other site 491916011560 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916011561 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916011562 DNA binding site [nucleotide binding] 491916011563 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491916011564 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 491916011565 short chain dehydrogenase; Provisional; Region: PRK06198 491916011566 classical (c) SDRs; Region: SDR_c; cd05233 491916011567 NAD(P) binding site [chemical binding]; other site 491916011568 active site 491916011569 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 491916011570 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 491916011571 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 491916011572 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 491916011573 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 491916011574 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916011575 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916011576 Walker A/P-loop; other site 491916011577 ATP binding site [chemical binding]; other site 491916011578 Q-loop/lid; other site 491916011579 ABC transporter signature motif; other site 491916011580 Walker B; other site 491916011581 D-loop; other site 491916011582 H-loop/switch region; other site 491916011583 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916011584 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 491916011585 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916011586 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 491916011587 dimer interface [polypeptide binding]; other site 491916011588 putative PBP binding loops; other site 491916011589 ABC-ATPase subunit interface; other site 491916011590 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916011591 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 491916011592 Ligand Binding Site [chemical binding]; other site 491916011593 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 491916011594 active site 491916011595 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 491916011596 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 491916011597 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 491916011598 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916011599 cyclase homology domain; Region: CHD; cd07302 491916011600 nucleotidyl binding site; other site 491916011601 metal binding site [ion binding]; metal-binding site 491916011602 dimer interface [polypeptide binding]; other site 491916011603 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 491916011604 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 491916011605 dimer interface [polypeptide binding]; other site 491916011606 putative radical transfer pathway; other site 491916011607 diiron center [ion binding]; other site 491916011608 tyrosyl radical; other site 491916011609 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 491916011610 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 491916011611 Class I ribonucleotide reductase; Region: RNR_I; cd01679 491916011612 active site 491916011613 dimer interface [polypeptide binding]; other site 491916011614 catalytic residues [active] 491916011615 effector binding site; other site 491916011616 R2 peptide binding site; other site 491916011617 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 491916011618 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 491916011619 catalytic residues [active] 491916011620 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 491916011621 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 491916011622 metal-binding site [ion binding] 491916011623 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491916011624 Soluble P-type ATPase [General function prediction only]; Region: COG4087 491916011625 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 491916011626 DNA binding residues [nucleotide binding] 491916011627 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 491916011628 dimer interface [polypeptide binding]; other site 491916011629 putative metal binding site [ion binding]; other site 491916011630 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 491916011631 methionine sulfoxide reductase B; Provisional; Region: PRK00222 491916011632 SelR domain; Region: SelR; pfam01641 491916011633 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 491916011634 GAF domain; Region: GAF; cl17456 491916011635 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491916011636 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 491916011637 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916011638 NAD(P) binding site [chemical binding]; other site 491916011639 catalytic residues [active] 491916011640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 491916011641 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 491916011642 intracellular protease, PfpI family; Region: PfpI; TIGR01382 491916011643 conserved cys residue [active] 491916011644 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 491916011645 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 491916011646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916011647 NAD(P) binding site [chemical binding]; other site 491916011648 active site 491916011649 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 491916011650 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 491916011651 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916011652 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916011653 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916011654 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 491916011655 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 491916011656 Growth hormone receptor binding; Region: GHBP; pfam12772 491916011657 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916011658 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 491916011659 TM-ABC transporter signature motif; other site 491916011660 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916011661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916011662 Walker A/P-loop; other site 491916011663 ATP binding site [chemical binding]; other site 491916011664 Q-loop/lid; other site 491916011665 ABC transporter signature motif; other site 491916011666 Walker B; other site 491916011667 D-loop; other site 491916011668 H-loop/switch region; other site 491916011669 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916011670 Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs; Region: PBP1_tmGBP; cd06314 491916011671 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916011672 ligand binding site [chemical binding]; other site 491916011673 dimerization interface [polypeptide binding]; other site 491916011674 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 491916011675 classical (c) SDRs; Region: SDR_c; cd05233 491916011676 NAD(P) binding site [chemical binding]; other site 491916011677 active site 491916011678 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 491916011679 Peptidase family M23; Region: Peptidase_M23; pfam01551 491916011680 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 491916011681 Clp amino terminal domain; Region: Clp_N; pfam02861 491916011682 Clp amino terminal domain; Region: Clp_N; pfam02861 491916011683 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 491916011684 Walker A motif; other site 491916011685 ATP binding site [chemical binding]; other site 491916011686 Walker B motif; other site 491916011687 arginine finger; other site 491916011688 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 491916011689 Walker A motif; other site 491916011690 ATP binding site [chemical binding]; other site 491916011691 Walker B motif; other site 491916011692 arginine finger; other site 491916011693 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 491916011694 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 491916011695 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 491916011696 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 491916011697 S-adenosylmethionine binding site [chemical binding]; other site 491916011698 peptide chain release factor 1; Validated; Region: prfA; PRK00591 491916011699 This domain is found in peptide chain release factors; Region: PCRF; smart00937 491916011700 RF-1 domain; Region: RF-1; pfam00472 491916011701 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 491916011702 GAF domain; Region: GAF; pfam01590 491916011703 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 491916011704 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 491916011705 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 491916011706 aspartate kinase; Reviewed; Region: PRK06635 491916011707 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 491916011708 putative nucleotide binding site [chemical binding]; other site 491916011709 putative catalytic residues [active] 491916011710 putative Mg ion binding site [ion binding]; other site 491916011711 putative aspartate binding site [chemical binding]; other site 491916011712 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 491916011713 putative allosteric regulatory site; other site 491916011714 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 491916011715 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 491916011716 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 491916011717 S-adenosylmethionine binding site [chemical binding]; other site 491916011718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 491916011719 Predicted amidohydrolase [General function prediction only]; Region: COG0388 491916011720 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 491916011721 putative active site [active] 491916011722 catalytic triad [active] 491916011723 dimer interface [polypeptide binding]; other site 491916011724 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 491916011725 GSH binding site [chemical binding]; other site 491916011726 catalytic residues [active] 491916011727 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 491916011728 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916011729 active site 491916011730 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 491916011731 Methyltransferase domain; Region: Methyltransf_11; pfam08241 491916011732 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 491916011733 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 491916011734 active site 491916011735 8-oxo-dGMP binding site [chemical binding]; other site 491916011736 nudix motif; other site 491916011737 metal binding site [ion binding]; metal-binding site 491916011738 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916011739 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 491916011740 heterotetramer interface [polypeptide binding]; other site 491916011741 active site pocket [active] 491916011742 cleavage site 491916011743 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 491916011744 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 491916011745 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 491916011746 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 491916011747 ATP binding site [chemical binding]; other site 491916011748 putative Mg++ binding site [ion binding]; other site 491916011749 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 491916011750 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; cl17351 491916011751 nucleotide binding region [chemical binding]; other site 491916011752 SEC-C motif; Region: SEC-C; pfam02810 491916011753 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 491916011754 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 491916011755 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 491916011756 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 491916011757 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 491916011758 active site 491916011759 acyl-activating enzyme (AAE) consensus motif; other site 491916011760 putative CoA binding site [chemical binding]; other site 491916011761 AMP binding site [chemical binding]; other site 491916011762 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 491916011763 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916011764 active site 491916011765 catalytic tetrad [active] 491916011766 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916011767 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916011768 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 491916011769 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916011770 putative substrate translocation pore; other site 491916011771 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 491916011772 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 491916011773 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916011774 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 491916011775 ligand binding site [chemical binding]; other site 491916011776 flexible hinge region; other site 491916011777 Predicted membrane protein [Function unknown]; Region: COG1238 491916011778 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 491916011779 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 491916011780 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 491916011781 active site 491916011782 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 491916011783 endonuclease III; Region: ENDO3c; smart00478 491916011784 minor groove reading motif; other site 491916011785 helix-hairpin-helix signature motif; other site 491916011786 substrate binding pocket [chemical binding]; other site 491916011787 active site 491916011788 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 491916011789 active site 491916011790 HIGH motif; other site 491916011791 nucleotide binding site [chemical binding]; other site 491916011792 active site 491916011793 KMSKS motif; other site 491916011794 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 491916011795 short chain dehydrogenase; Provisional; Region: PRK05993 491916011796 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 491916011797 NADP binding site [chemical binding]; other site 491916011798 active site 491916011799 steroid binding site; other site 491916011800 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 491916011801 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 491916011802 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 491916011803 Rhomboid family; Region: Rhomboid; cl11446 491916011804 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 491916011805 Ligand binding site [chemical binding]; other site 491916011806 Electron transfer flavoprotein domain; Region: ETF; pfam01012 491916011807 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 491916011808 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 491916011809 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 491916011810 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 491916011811 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 491916011812 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 491916011813 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 491916011814 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491916011815 catalytic residues [active] 491916011816 argininosuccinate lyase; Provisional; Region: PRK00855 491916011817 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 491916011818 active sites [active] 491916011819 tetramer interface [polypeptide binding]; other site 491916011820 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 491916011821 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 491916011822 active site 491916011823 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491916011824 substrate binding site [chemical binding]; other site 491916011825 catalytic residues [active] 491916011826 dimer interface [polypeptide binding]; other site 491916011827 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 491916011828 Response regulator receiver domain; Region: Response_reg; pfam00072 491916011829 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 491916011830 active site 491916011831 phosphorylation site [posttranslational modification] 491916011832 intermolecular recognition site; other site 491916011833 dimerization interface [polypeptide binding]; other site 491916011834 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916011835 active site 491916011836 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 491916011837 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 491916011838 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491916011839 Walker A/P-loop; other site 491916011840 ATP binding site [chemical binding]; other site 491916011841 Q-loop/lid; other site 491916011842 ABC transporter signature motif; other site 491916011843 Walker B; other site 491916011844 D-loop; other site 491916011845 H-loop/switch region; other site 491916011846 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 491916011847 Uncharacterized conserved protein [Function unknown]; Region: COG1434 491916011848 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 491916011849 putative active site [active] 491916011850 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491916011851 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491916011852 putative acyl-acceptor binding pocket; other site 491916011853 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 491916011854 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 491916011855 putative active site pocket [active] 491916011856 dimerization interface [polypeptide binding]; other site 491916011857 putative catalytic residue [active] 491916011858 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 491916011859 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916011860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916011861 Coenzyme A binding pocket [chemical binding]; other site 491916011862 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 491916011863 prephenate dehydrogenase; Validated; Region: PRK08507 491916011864 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 491916011865 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 491916011866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916011867 homodimer interface [polypeptide binding]; other site 491916011868 catalytic residue [active] 491916011869 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916011870 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 491916011871 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 491916011872 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 491916011873 EamA-like transporter family; Region: EamA; pfam00892 491916011874 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916011875 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 491916011876 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 491916011877 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 491916011878 hypothetical protein; Validated; Region: PRK06217 491916011879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 491916011880 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 491916011881 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 491916011882 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 491916011883 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 491916011884 metal ion-dependent adhesion site (MIDAS); other site 491916011885 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 491916011886 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 491916011887 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 491916011888 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 491916011889 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 491916011890 HSP70 interaction site [polypeptide binding]; other site 491916011891 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 491916011892 Domain of unknown function DUF21; Region: DUF21; pfam01595 491916011893 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 491916011894 Transporter associated domain; Region: CorC_HlyC; smart01091 491916011895 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 491916011896 active site 491916011897 dimer interface [polypeptide binding]; other site 491916011898 metal binding site [ion binding]; metal-binding site 491916011899 shikimate kinase; Provisional; Region: PRK13946 491916011900 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 491916011901 ADP binding site [chemical binding]; other site 491916011902 magnesium binding site [ion binding]; other site 491916011903 putative shikimate binding site; other site 491916011904 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 491916011905 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 491916011906 active site 491916011907 DNA binding site [nucleotide binding] 491916011908 Int/Topo IB signature motif; other site 491916011909 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 491916011910 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 491916011911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 491916011912 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 491916011913 CPxP motif; other site 491916011914 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 491916011915 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 491916011916 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 491916011917 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 491916011918 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491916011919 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 491916011920 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 491916011921 metal binding site [ion binding]; metal-binding site 491916011922 putative dimer interface [polypeptide binding]; other site 491916011923 yich00037; insertion sequence:phage integrase 491916011924 structural protein; Region: PHA01972 491916011925 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916011926 yich00038; insertion sequence:Transposase, IS4-like 491916011927 Protein of unknown function (DUF982); Region: DUF982; pfam06169 491916011928 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 491916011929 yich00039; insertion sequence:Transposase IS3/IS911 491916011930 yich00040; insertion sequence:Integrase, catalytic core 491916011931 BON domain; Region: BON; pfam04972 491916011932 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 491916011933 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 491916011934 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 491916011935 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 491916011936 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916011937 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916011938 Walker A/P-loop; other site 491916011939 ATP binding site [chemical binding]; other site 491916011940 Q-loop/lid; other site 491916011941 ABC transporter signature motif; other site 491916011942 Walker B; other site 491916011943 D-loop; other site 491916011944 H-loop/switch region; other site 491916011945 TOBE domain; Region: TOBE_2; pfam08402 491916011946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 491916011947 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 491916011948 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916011949 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 491916011950 dimer interface [polypeptide binding]; other site 491916011951 conserved gate region; other site 491916011952 putative PBP binding loops; other site 491916011953 ABC-ATPase subunit interface; other site 491916011954 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916011955 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 491916011956 dimer interface [polypeptide binding]; other site 491916011957 conserved gate region; other site 491916011958 putative PBP binding loops; other site 491916011959 ABC-ATPase subunit interface; other site 491916011960 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916011961 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916011962 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916011963 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916011964 domain linker motif; other site 491916011965 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 491916011966 dimerization interface [polypeptide binding]; other site 491916011967 ligand binding site [chemical binding]; other site 491916011968 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 491916011969 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 491916011970 substrate-cofactor binding pocket; other site 491916011971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916011972 catalytic residue [active] 491916011973 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 491916011974 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491916011975 Surface antigen; Region: Bac_surface_Ag; pfam01103 491916011976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 491916011977 Family of unknown function (DUF490); Region: DUF490; pfam04357 491916011978 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916011979 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 491916011980 AsnC family; Region: AsnC_trans_reg; pfam01037 491916011981 Arginase family; Region: Arginase; cd09989 491916011982 active site 491916011983 Mn binding site [ion binding]; other site 491916011984 oligomer interface [polypeptide binding]; other site 491916011985 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 491916011986 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 491916011987 inhibitor-cofactor binding pocket; inhibition site 491916011988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916011989 catalytic residue [active] 491916011990 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 491916011991 putative CheA interaction surface; other site 491916011992 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 491916011993 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916011994 putative active site [active] 491916011995 heme pocket [chemical binding]; other site 491916011996 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 491916011997 putative active site [active] 491916011998 heme pocket [chemical binding]; other site 491916011999 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916012000 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916012001 dimer interface [polypeptide binding]; other site 491916012002 putative CheW interface [polypeptide binding]; other site 491916012003 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 491916012004 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 491916012005 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 491916012006 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 491916012007 catalytic loop [active] 491916012008 iron binding site [ion binding]; other site 491916012009 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 491916012010 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 491916012011 [4Fe-4S] binding site [ion binding]; other site 491916012012 molybdopterin cofactor binding site; other site 491916012013 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 491916012014 molybdopterin cofactor binding site; other site 491916012015 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 491916012016 putative dimer interface [polypeptide binding]; other site 491916012017 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 491916012018 SLBB domain; Region: SLBB; pfam10531 491916012019 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 491916012020 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 491916012021 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 491916012022 putative dimer interface [polypeptide binding]; other site 491916012023 [2Fe-2S] cluster binding site [ion binding]; other site 491916012024 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916012025 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916012026 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 491916012027 dimerization interface [polypeptide binding]; other site 491916012028 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 491916012029 dimerization interface [polypeptide binding]; other site 491916012030 putative DNA binding site [nucleotide binding]; other site 491916012031 putative Zn2+ binding site [ion binding]; other site 491916012032 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 491916012033 classical (c) SDRs; Region: SDR_c; cd05233 491916012034 NAD(P) binding site [chemical binding]; other site 491916012035 active site 491916012036 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 491916012037 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 491916012038 DNA binding residues [nucleotide binding] 491916012039 dimer interface [polypeptide binding]; other site 491916012040 [2Fe-2S] cluster binding site [ion binding]; other site 491916012041 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491916012042 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 491916012043 dimer interface [polypeptide binding]; other site 491916012044 conserved gate region; other site 491916012045 putative PBP binding loops; other site 491916012046 ABC-ATPase subunit interface; other site 491916012047 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491916012048 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491916012049 Walker A/P-loop; other site 491916012050 ATP binding site [chemical binding]; other site 491916012051 Q-loop/lid; other site 491916012052 ABC transporter signature motif; other site 491916012053 Walker B; other site 491916012054 D-loop; other site 491916012055 H-loop/switch region; other site 491916012056 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 491916012057 NMT1/THI5 like; Region: NMT1; pfam09084 491916012058 substrate binding pocket [chemical binding]; other site 491916012059 membrane-bound complex binding site; other site 491916012060 hinge residues; other site 491916012061 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916012062 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 491916012063 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 491916012064 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 491916012065 gamma subunit interface [polypeptide binding]; other site 491916012066 epsilon subunit interface [polypeptide binding]; other site 491916012067 LBP interface [polypeptide binding]; other site 491916012068 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 491916012069 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 491916012070 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 491916012071 alpha subunit interaction interface [polypeptide binding]; other site 491916012072 Walker A motif; other site 491916012073 ATP binding site [chemical binding]; other site 491916012074 Walker B motif; other site 491916012075 inhibitor binding site; inhibition site 491916012076 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 491916012077 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 491916012078 core domain interface [polypeptide binding]; other site 491916012079 delta subunit interface [polypeptide binding]; other site 491916012080 epsilon subunit interface [polypeptide binding]; other site 491916012081 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 491916012082 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 491916012083 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 491916012084 beta subunit interaction interface [polypeptide binding]; other site 491916012085 Walker A motif; other site 491916012086 ATP binding site [chemical binding]; other site 491916012087 Walker B motif; other site 491916012088 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 491916012089 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 491916012090 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 491916012091 primosome assembly protein PriA; Validated; Region: PRK05580 491916012092 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 491916012093 ATP binding site [chemical binding]; other site 491916012094 putative Mg++ binding site [ion binding]; other site 491916012095 helicase superfamily c-terminal domain; Region: HELICc; smart00490 491916012096 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916012097 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916012098 inhibitor site; inhibition site 491916012099 active site 491916012100 dimer interface [polypeptide binding]; other site 491916012101 catalytic residue [active] 491916012102 choline dehydrogenase; Validated; Region: PRK02106 491916012103 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491916012104 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916012105 Coenzyme A binding pocket [chemical binding]; other site 491916012106 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491916012107 Putative hemolysin [General function prediction only]; Region: COG3176 491916012108 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491916012109 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 491916012110 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 491916012111 active site 491916012112 DNA binding site [nucleotide binding] 491916012113 Int/Topo IB signature motif; other site 491916012114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 491916012115 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 491916012116 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 491916012117 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 491916012118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916012119 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491916012120 short chain dehydrogenase; Provisional; Region: PRK06123 491916012121 classical (c) SDRs; Region: SDR_c; cd05233 491916012122 NAD(P) binding site [chemical binding]; other site 491916012123 active site 491916012124 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 491916012125 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 491916012126 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 491916012127 E3 interaction surface; other site 491916012128 lipoyl attachment site [posttranslational modification]; other site 491916012129 e3 binding domain; Region: E3_binding; pfam02817 491916012130 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 491916012131 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 491916012132 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 491916012133 TPP-binding site [chemical binding]; other site 491916012134 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 491916012135 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 491916012136 CoA binding domain; Region: CoA_binding; smart00881 491916012137 CoA-ligase; Region: Ligase_CoA; pfam00549 491916012138 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 491916012139 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 491916012140 CoA-ligase; Region: Ligase_CoA; pfam00549 491916012141 malate dehydrogenase; Reviewed; Region: PRK06223 491916012142 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 491916012143 NAD(P) binding site [chemical binding]; other site 491916012144 dimer interface [polypeptide binding]; other site 491916012145 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491916012146 substrate binding site [chemical binding]; other site 491916012147 Predicted ATPase [General function prediction only]; Region: COG1485 491916012148 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 491916012149 Protease inhibitor Inh; Region: Inh; pfam02974 491916012150 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 491916012151 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 491916012152 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 491916012153 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 491916012154 L-aspartate oxidase; Provisional; Region: PRK06175 491916012155 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 491916012156 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 491916012157 putative SdhC subunit interface [polypeptide binding]; other site 491916012158 putative proximal heme binding site [chemical binding]; other site 491916012159 putative Iron-sulfur protein interface [polypeptide binding]; other site 491916012160 putative proximal quinone binding site; other site 491916012161 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 491916012162 Iron-sulfur protein interface; other site 491916012163 proximal quinone binding site [chemical binding]; other site 491916012164 SdhD (CybS) interface [polypeptide binding]; other site 491916012165 proximal heme binding site [chemical binding]; other site 491916012166 Predicted methyltransferase [General function prediction only]; Region: COG3897 491916012167 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 491916012168 EVE domain; Region: EVE; cl00728 491916012169 YciI-like protein; Reviewed; Region: PRK12865 491916012170 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 491916012171 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 491916012172 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 491916012173 UGMP family protein; Validated; Region: PRK09604 491916012174 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 491916012175 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 491916012176 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; cl17708 491916012177 domain interfaces; other site 491916012178 active site 491916012179 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 491916012180 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 491916012181 active site 491916012182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 491916012183 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 491916012184 HemY protein N-terminus; Region: HemY_N; pfam07219 491916012185 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 491916012186 putative metal binding site [ion binding]; other site 491916012187 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 491916012188 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 491916012189 catalytic triad [active] 491916012190 enterobactin exporter EntS; Provisional; Region: PRK10489 491916012191 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 491916012192 putative substrate translocation pore; other site 491916012193 YGGT family; Region: YGGT; pfam02325 491916012194 hypothetical protein; Validated; Region: PRK01310 491916012195 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 491916012196 dimer interface [polypeptide binding]; other site 491916012197 substrate binding site [chemical binding]; other site 491916012198 metal binding sites [ion binding]; metal-binding site 491916012199 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491916012200 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916012201 Coenzyme A binding pocket [chemical binding]; other site 491916012202 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 491916012203 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 491916012204 G1 box; other site 491916012205 putative GEF interaction site [polypeptide binding]; other site 491916012206 GTP/Mg2+ binding site [chemical binding]; other site 491916012207 Switch I region; other site 491916012208 G2 box; other site 491916012209 G3 box; other site 491916012210 Switch II region; other site 491916012211 G4 box; other site 491916012212 G5 box; other site 491916012213 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 491916012214 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 491916012215 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 491916012216 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 491916012217 active site 491916012218 Zn binding site [ion binding]; other site 491916012219 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916012220 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 491916012221 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 491916012222 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 491916012223 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491916012224 argininosuccinate synthase; Provisional; Region: PRK13820 491916012225 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 491916012226 ANP binding site [chemical binding]; other site 491916012227 Substrate Binding Site II [chemical binding]; other site 491916012228 Substrate Binding Site I [chemical binding]; other site 491916012229 hypothetical protein; Provisional; Region: PRK06194 491916012230 classical (c) SDRs; Region: SDR_c; cd05233 491916012231 NAD(P) binding site [chemical binding]; other site 491916012232 active site 491916012233 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916012234 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 491916012235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916012236 Walker A/P-loop; other site 491916012237 ATP binding site [chemical binding]; other site 491916012238 Q-loop/lid; other site 491916012239 ABC transporter signature motif; other site 491916012240 Walker B; other site 491916012241 D-loop; other site 491916012242 H-loop/switch region; other site 491916012243 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916012244 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 491916012245 TM-ABC transporter signature motif; other site 491916012246 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 491916012247 zinc binding site [ion binding]; other site 491916012248 putative ligand binding site [chemical binding]; other site 491916012249 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 491916012250 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 491916012251 FeS/SAM binding site; other site 491916012252 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 491916012253 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916012254 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 491916012255 DNA binding residues [nucleotide binding] 491916012256 Uncharacterized conserved protein [Function unknown]; Region: COG3339 491916012257 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 491916012258 aromatic arch; other site 491916012259 DCoH dimer interaction site [polypeptide binding]; other site 491916012260 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 491916012261 DCoH tetramer interaction site [polypeptide binding]; other site 491916012262 substrate binding site [chemical binding]; other site 491916012263 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 491916012264 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491916012265 active site 491916012266 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 491916012267 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 491916012268 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 491916012269 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 491916012270 active site 491916012271 catalytic triad [active] 491916012272 oxyanion hole [active] 491916012273 switch loop; other site 491916012274 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 491916012275 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491916012276 Walker A/P-loop; other site 491916012277 ATP binding site [chemical binding]; other site 491916012278 Q-loop/lid; other site 491916012279 ABC transporter signature motif; other site 491916012280 Walker B; other site 491916012281 D-loop; other site 491916012282 H-loop/switch region; other site 491916012283 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 491916012284 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491916012285 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 491916012286 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 491916012287 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491916012288 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916012289 Coenzyme A binding pocket [chemical binding]; other site 491916012290 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 491916012291 Uncharacterized secreted protein [Function unknown]; Region: COG5429 491916012292 aconitate hydratase; Validated; Region: PRK09277 491916012293 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 491916012294 substrate binding site [chemical binding]; other site 491916012295 ligand binding site [chemical binding]; other site 491916012296 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 491916012297 substrate binding site [chemical binding]; other site 491916012298 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 491916012299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916012300 Walker A/P-loop; other site 491916012301 ATP binding site [chemical binding]; other site 491916012302 Q-loop/lid; other site 491916012303 ABC transporter signature motif; other site 491916012304 Walker B; other site 491916012305 D-loop; other site 491916012306 H-loop/switch region; other site 491916012307 heme exporter protein CcmB; Region: ccmB; TIGR01190 491916012308 heme exporter protein CcmC; Region: ccmC; TIGR01191 491916012309 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 491916012310 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 491916012311 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 491916012312 catalytic residues [active] 491916012313 central insert; other site 491916012314 hypothetical protein; Provisional; Region: PRK00944 491916012315 intracellular septation protein A; Reviewed; Region: PRK00259 491916012316 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 491916012317 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 491916012318 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 491916012319 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 491916012320 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 491916012321 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 491916012322 FeS/SAM binding site; other site 491916012323 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 491916012324 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491916012325 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491916012326 signal recognition particle protein; Provisional; Region: PRK10867 491916012327 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 491916012328 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 491916012329 P loop; other site 491916012330 GTP binding site [chemical binding]; other site 491916012331 Signal peptide binding domain; Region: SRP_SPB; pfam02978 491916012332 chorismate mutase; Provisional; Region: PRK09239 491916012333 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 491916012334 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 491916012335 RimM N-terminal domain; Region: RimM; pfam01782 491916012336 PRC-barrel domain; Region: PRC; pfam05239 491916012337 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 491916012338 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 491916012339 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916012340 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 491916012341 substrate binding pocket [chemical binding]; other site 491916012342 membrane-bound complex binding site; other site 491916012343 hinge residues; other site 491916012344 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 491916012345 dimer interface [polypeptide binding]; other site 491916012346 conserved gate region; other site 491916012347 putative PBP binding loops; other site 491916012348 ABC-ATPase subunit interface; other site 491916012349 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 491916012350 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 491916012351 substrate binding site [chemical binding]; other site 491916012352 ligand binding site [chemical binding]; other site 491916012353 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 491916012354 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916012355 active site 491916012356 catalytic tetrad [active] 491916012357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 491916012358 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916012359 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 491916012360 active site 491916012361 phosphorylation site [posttranslational modification] 491916012362 intermolecular recognition site; other site 491916012363 dimerization interface [polypeptide binding]; other site 491916012364 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 491916012365 DNA binding site [nucleotide binding] 491916012366 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916012367 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 491916012368 ligand binding site [chemical binding]; other site 491916012369 flexible hinge region; other site 491916012370 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 491916012371 putative catalytic site [active] 491916012372 putative phosphate binding site [ion binding]; other site 491916012373 active site 491916012374 metal binding site A [ion binding]; metal-binding site 491916012375 DNA binding site [nucleotide binding] 491916012376 putative AP binding site [nucleotide binding]; other site 491916012377 putative metal binding site B [ion binding]; other site 491916012378 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 491916012379 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 491916012380 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 491916012381 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 491916012382 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 491916012383 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 491916012384 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 491916012385 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 491916012386 Nitrogen regulatory protein P-II; Region: P-II; smart00938 491916012387 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 491916012388 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 491916012389 active site 491916012390 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 491916012391 catalytic triad [active] 491916012392 dimer interface [polypeptide binding]; other site 491916012393 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 491916012394 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491916012395 Uncharacterized conserved protein [Function unknown]; Region: COG2835 491916012396 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 491916012397 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 491916012398 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 491916012399 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 491916012400 binding surface 491916012401 TPR motif; other site 491916012402 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 491916012403 putative deacylase active site [active] 491916012404 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 491916012405 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916012406 Coenzyme A binding pocket [chemical binding]; other site 491916012407 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 491916012408 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 491916012409 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 491916012410 NAD binding site [chemical binding]; other site 491916012411 homodimer interface [polypeptide binding]; other site 491916012412 active site 491916012413 substrate binding site [chemical binding]; other site 491916012414 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 491916012415 Sulfatase; Region: Sulfatase; cl17466 491916012416 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 491916012417 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 491916012418 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916012419 putative ligand binding site [chemical binding]; other site 491916012420 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916012421 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916012422 Walker A/P-loop; other site 491916012423 ATP binding site [chemical binding]; other site 491916012424 Q-loop/lid; other site 491916012425 ABC transporter signature motif; other site 491916012426 Walker B; other site 491916012427 D-loop; other site 491916012428 H-loop/switch region; other site 491916012429 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916012430 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916012431 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 491916012432 TM-ABC transporter signature motif; other site 491916012433 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 491916012434 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 491916012435 active site 491916012436 dimer interface [polypeptide binding]; other site 491916012437 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916012438 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 491916012439 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916012440 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 491916012441 dimer interface [polypeptide binding]; other site 491916012442 conserved gate region; other site 491916012443 putative PBP binding loops; other site 491916012444 ABC-ATPase subunit interface; other site 491916012445 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 491916012446 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 491916012447 dimer interface [polypeptide binding]; other site 491916012448 conserved gate region; other site 491916012449 putative PBP binding loops; other site 491916012450 ABC-ATPase subunit interface; other site 491916012451 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916012452 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916012453 Walker A/P-loop; other site 491916012454 ATP binding site [chemical binding]; other site 491916012455 Q-loop/lid; other site 491916012456 ABC transporter signature motif; other site 491916012457 Walker B; other site 491916012458 D-loop; other site 491916012459 H-loop/switch region; other site 491916012460 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916012461 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916012462 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916012463 Walker A/P-loop; other site 491916012464 ATP binding site [chemical binding]; other site 491916012465 Q-loop/lid; other site 491916012466 ABC transporter signature motif; other site 491916012467 Walker B; other site 491916012468 D-loop; other site 491916012469 H-loop/switch region; other site 491916012470 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 491916012471 Putative glucoamylase; Region: Glycoamylase; pfam10091 491916012472 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 491916012473 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 491916012474 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 491916012475 Protein of unknown function, DUF608; Region: DUF608; pfam04685 491916012476 OpgC protein; Region: OpgC_C; cl17858 491916012477 Acyltransferase family; Region: Acyl_transf_3; pfam01757 491916012478 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 491916012479 dimer interface [polypeptide binding]; other site 491916012480 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916012481 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 491916012482 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916012483 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 491916012484 Walker A/P-loop; other site 491916012485 ATP binding site [chemical binding]; other site 491916012486 Q-loop/lid; other site 491916012487 ABC transporter signature motif; other site 491916012488 Walker B; other site 491916012489 D-loop; other site 491916012490 H-loop/switch region; other site 491916012491 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 491916012492 Autoinducer binding domain; Region: Autoind_bind; pfam03472 491916012493 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 491916012494 DNA binding residues [nucleotide binding] 491916012495 dimerization interface [polypeptide binding]; other site 491916012496 pyruvate carboxylase; Reviewed; Region: PRK12999 491916012497 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491916012498 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 491916012499 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 491916012500 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 491916012501 active site 491916012502 catalytic residues [active] 491916012503 metal binding site [ion binding]; metal-binding site 491916012504 homodimer binding site [polypeptide binding]; other site 491916012505 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 491916012506 carboxyltransferase (CT) interaction site; other site 491916012507 biotinylation site [posttranslational modification]; other site 491916012508 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491916012509 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916012510 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916012511 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916012512 Walker A/P-loop; other site 491916012513 ATP binding site [chemical binding]; other site 491916012514 Q-loop/lid; other site 491916012515 ABC transporter signature motif; other site 491916012516 Walker B; other site 491916012517 D-loop; other site 491916012518 H-loop/switch region; other site 491916012519 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916012520 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 491916012521 dimer interface [polypeptide binding]; other site 491916012522 conserved gate region; other site 491916012523 putative PBP binding loops; other site 491916012524 ABC-ATPase subunit interface; other site 491916012525 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916012526 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 491916012527 substrate binding pocket [chemical binding]; other site 491916012528 membrane-bound complex binding site; other site 491916012529 hinge residues; other site 491916012530 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491916012531 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 491916012532 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491916012533 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 491916012534 putative substrate translocation pore; other site 491916012535 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916012536 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 491916012537 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 491916012538 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 491916012539 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 491916012540 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 491916012541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916012542 homodimer interface [polypeptide binding]; other site 491916012543 catalytic residue [active] 491916012544 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 491916012545 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491916012546 substrate binding pocket [chemical binding]; other site 491916012547 chain length determination region; other site 491916012548 substrate-Mg2+ binding site; other site 491916012549 catalytic residues [active] 491916012550 aspartate-rich region 1; other site 491916012551 active site lid residues [active] 491916012552 aspartate-rich region 2; other site 491916012553 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 491916012554 Transglycosylase; Region: Transgly; cl17702 491916012555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 491916012556 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 491916012557 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 491916012558 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491916012559 putative C-terminal domain interface [polypeptide binding]; other site 491916012560 putative GSH binding site (G-site) [chemical binding]; other site 491916012561 putative dimer interface [polypeptide binding]; other site 491916012562 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 491916012563 putative dimer interface [polypeptide binding]; other site 491916012564 putative N-terminal domain interface [polypeptide binding]; other site 491916012565 putative substrate binding pocket (H-site) [chemical binding]; other site 491916012566 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 491916012567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 491916012568 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 491916012569 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 491916012570 putative acyltransferase; Provisional; Region: PRK05790 491916012571 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 491916012572 dimer interface [polypeptide binding]; other site 491916012573 active site 491916012574 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 491916012575 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 491916012576 NAD(P) binding site [chemical binding]; other site 491916012577 homotetramer interface [polypeptide binding]; other site 491916012578 homodimer interface [polypeptide binding]; other site 491916012579 active site 491916012580 DEAD/DEAH box helicase; Region: DEAD; pfam00270 491916012581 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 491916012582 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 491916012583 nucleotide binding region [chemical binding]; other site 491916012584 ATP-binding site [chemical binding]; other site 491916012585 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 491916012586 RNA binding surface [nucleotide binding]; other site 491916012587 Ferredoxin [Energy production and conversion]; Region: COG1146 491916012588 4Fe-4S binding domain; Region: Fer4; cl02805 491916012589 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 491916012590 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 491916012591 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 491916012592 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916012593 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 491916012594 DNA binding residues [nucleotide binding] 491916012595 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 491916012596 Peptidase family M48; Region: Peptidase_M48; pfam01435 491916012597 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 491916012598 putative substrate translocation pore; other site 491916012599 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 491916012600 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916012601 MarR family; Region: MarR_2; pfam12802 491916012602 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 491916012603 Thiamine pyrophosphokinase; Region: TPK; cd07995 491916012604 active site 491916012605 dimerization interface [polypeptide binding]; other site 491916012606 thiamine binding site [chemical binding]; other site 491916012607 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491916012608 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916012609 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916012610 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 491916012611 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 491916012612 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 491916012613 homoserine O-succinyltransferase; Provisional; Region: PRK05368 491916012614 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 491916012615 proposed active site lysine [active] 491916012616 conserved cys residue [active] 491916012617 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 491916012618 active site 491916012619 catalytic residues [active] 491916012620 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 491916012621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916012622 DNA-binding site [nucleotide binding]; DNA binding site 491916012623 UTRA domain; Region: UTRA; pfam07702 491916012624 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 491916012625 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 491916012626 dimer interface [polypeptide binding]; other site 491916012627 active site 491916012628 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 491916012629 dimer interface [polypeptide binding]; other site 491916012630 active site 491916012631 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 491916012632 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 491916012633 active site 491916012634 dimer interface [polypeptide binding]; other site 491916012635 hypothetical protein; Provisional; Region: PRK02947 491916012636 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 491916012637 putative active site [active] 491916012638 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 491916012639 elongation factor P; Validated; Region: PRK00529 491916012640 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 491916012641 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 491916012642 RNA binding site [nucleotide binding]; other site 491916012643 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 491916012644 RNA binding site [nucleotide binding]; other site 491916012645 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 491916012646 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 491916012647 motif 1; other site 491916012648 dimer interface [polypeptide binding]; other site 491916012649 active site 491916012650 motif 2; other site 491916012651 motif 3; other site 491916012652 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 491916012653 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 491916012654 FeS/SAM binding site; other site 491916012655 acyl carrier protein; Provisional; Region: PRK07081 491916012656 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 491916012657 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491916012658 active site 491916012659 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491916012660 active site 491916012661 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 491916012662 dimer interface [polypeptide binding]; other site 491916012663 motif 1; other site 491916012664 active site 491916012665 motif 2; other site 491916012666 motif 3; other site 491916012667 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 491916012668 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 491916012669 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916012670 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 491916012671 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 491916012672 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 491916012673 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 491916012674 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 491916012675 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 491916012676 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 491916012677 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916012678 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916012679 AsnC family; Region: AsnC_trans_reg; pfam01037 491916012680 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916012681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916012682 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 491916012683 dimerization interface [polypeptide binding]; other site 491916012684 substrate binding pocket [chemical binding]; other site 491916012685 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 491916012686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 491916012687 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491916012688 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916012689 aldehyde dehydrogenase family 7 member; Region: PLN02315 491916012690 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 491916012691 tetrameric interface [polypeptide binding]; other site 491916012692 NAD binding site [chemical binding]; other site 491916012693 catalytic residues [active] 491916012694 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916012695 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491916012696 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 491916012697 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 491916012698 dimer interface [polypeptide binding]; other site 491916012699 conserved gate region; other site 491916012700 putative PBP binding loops; other site 491916012701 ABC-ATPase subunit interface; other site 491916012702 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 491916012703 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491916012704 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 491916012705 Walker A/P-loop; other site 491916012706 ATP binding site [chemical binding]; other site 491916012707 Q-loop/lid; other site 491916012708 ABC transporter signature motif; other site 491916012709 Walker B; other site 491916012710 D-loop; other site 491916012711 H-loop/switch region; other site 491916012712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 491916012713 Putative glucoamylase; Region: Glycoamylase; pfam10091 491916012714 Uncharacterized conserved protein [Function unknown]; Region: COG5476 491916012715 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 491916012716 MlrC C-terminus; Region: MlrC_C; pfam07171 491916012717 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 491916012718 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 491916012719 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 491916012720 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491916012721 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916012722 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491916012723 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916012724 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 491916012725 putative catalytic site [active] 491916012726 putative metal binding site [ion binding]; other site 491916012727 putative phosphate binding site [ion binding]; other site 491916012728 GTPase CgtA; Reviewed; Region: obgE; PRK12299 491916012729 GTP1/OBG; Region: GTP1_OBG; pfam01018 491916012730 Obg GTPase; Region: Obg; cd01898 491916012731 G1 box; other site 491916012732 GTP/Mg2+ binding site [chemical binding]; other site 491916012733 Switch I region; other site 491916012734 G2 box; other site 491916012735 G3 box; other site 491916012736 Switch II region; other site 491916012737 G4 box; other site 491916012738 G5 box; other site 491916012739 gamma-glutamyl kinase; Provisional; Region: PRK05429 491916012740 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 491916012741 nucleotide binding site [chemical binding]; other site 491916012742 homotetrameric interface [polypeptide binding]; other site 491916012743 putative phosphate binding site [ion binding]; other site 491916012744 putative allosteric binding site; other site 491916012745 PUA domain; Region: PUA; pfam01472 491916012746 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 491916012747 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 491916012748 putative catalytic cysteine [active] 491916012749 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 491916012750 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 491916012751 active site 491916012752 (T/H)XGH motif; other site 491916012753 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916012754 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 491916012755 dimer interface [polypeptide binding]; other site 491916012756 conserved gate region; other site 491916012757 putative PBP binding loops; other site 491916012758 ABC-ATPase subunit interface; other site 491916012759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916012760 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 491916012761 Walker A/P-loop; other site 491916012762 ATP binding site [chemical binding]; other site 491916012763 Q-loop/lid; other site 491916012764 ABC transporter signature motif; other site 491916012765 Walker B; other site 491916012766 D-loop; other site 491916012767 H-loop/switch region; other site 491916012768 TOBE domain; Region: TOBE; cl01440 491916012769 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 491916012770 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 491916012771 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 491916012772 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 491916012773 Peptidase family M23; Region: Peptidase_M23; pfam01551 491916012774 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 491916012775 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 491916012776 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 491916012777 protein binding site [polypeptide binding]; other site 491916012778 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 491916012779 Catalytic dyad [active] 491916012780 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 491916012781 NodB motif; other site 491916012782 putative active site [active] 491916012783 putative catalytic site [active] 491916012784 Zn binding site [ion binding]; other site 491916012785 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 491916012786 putative active site [active] 491916012787 Ap4A binding site [chemical binding]; other site 491916012788 nudix motif; other site 491916012789 putative metal binding site [ion binding]; other site 491916012790 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 491916012791 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 491916012792 heme binding site [chemical binding]; other site 491916012793 ferroxidase pore; other site 491916012794 ferroxidase diiron center [ion binding]; other site 491916012795 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 491916012796 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 491916012797 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 491916012798 putative active site [active] 491916012799 putative PHP Thumb interface [polypeptide binding]; other site 491916012800 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 491916012801 generic binding surface II; other site 491916012802 generic binding surface I; other site 491916012803 DNA Polymerase Y-family; Region: PolY_like; cd03468 491916012804 active site 491916012805 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 491916012806 DNA binding site [nucleotide binding] 491916012807 Uncharacterized conserved protein [Function unknown]; Region: COG4544 491916012808 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 491916012809 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 491916012810 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 491916012811 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 491916012812 putative dimer interface [polypeptide binding]; other site 491916012813 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916012814 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 491916012815 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 491916012816 substrate binding site [chemical binding]; other site 491916012817 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 491916012818 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 491916012819 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916012820 catalytic residue [active] 491916012821 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 491916012822 tartrate dehydrogenase; Region: TTC; TIGR02089 491916012823 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 491916012824 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 491916012825 active site 491916012826 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 491916012827 putative substrate translocation pore; other site 491916012828 FtsX-like permease family; Region: FtsX; pfam02687 491916012829 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491916012830 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 491916012831 Walker A/P-loop; other site 491916012832 ATP binding site [chemical binding]; other site 491916012833 Q-loop/lid; other site 491916012834 ABC transporter signature motif; other site 491916012835 Walker B; other site 491916012836 D-loop; other site 491916012837 H-loop/switch region; other site 491916012838 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 491916012839 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 491916012840 dimer interface [polypeptide binding]; other site 491916012841 active site 491916012842 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 491916012843 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 491916012844 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 491916012845 Transglycosylase SLT domain; Region: SLT_2; pfam13406 491916012846 murein hydrolase B; Provisional; Region: PRK10760; cl17906 491916012847 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916012848 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916012849 metal binding site [ion binding]; metal-binding site 491916012850 active site 491916012851 I-site; other site 491916012852 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 491916012853 active site clefts [active] 491916012854 zinc binding site [ion binding]; other site 491916012855 dimer interface [polypeptide binding]; other site 491916012856 pyridoxamine kinase; Validated; Region: PRK05756 491916012857 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 491916012858 pyridoxal binding site [chemical binding]; other site 491916012859 dimer interface [polypeptide binding]; other site 491916012860 ATP binding site [chemical binding]; other site 491916012861 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 491916012862 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 491916012863 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 491916012864 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 491916012865 purine monophosphate binding site [chemical binding]; other site 491916012866 dimer interface [polypeptide binding]; other site 491916012867 putative catalytic residues [active] 491916012868 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 491916012869 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 491916012870 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 491916012871 NusB family; Region: NusB; pfam01029 491916012872 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 491916012873 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 491916012874 heat shock protein HtpX; Provisional; Region: PRK01345 491916012875 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 491916012876 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 491916012877 acetyl-CoA synthetase; Provisional; Region: PRK00174 491916012878 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 491916012879 active site 491916012880 CoA binding site [chemical binding]; other site 491916012881 acyl-activating enzyme (AAE) consensus motif; other site 491916012882 AMP binding site [chemical binding]; other site 491916012883 acetate binding site [chemical binding]; other site 491916012884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 491916012885 flagellin; Reviewed; Region: PRK12687 491916012886 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491916012887 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491916012888 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 491916012889 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 491916012890 acyl-activating enzyme (AAE) consensus motif; other site 491916012891 putative AMP binding site [chemical binding]; other site 491916012892 putative active site [active] 491916012893 putative CoA binding site [chemical binding]; other site 491916012894 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 491916012895 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491916012896 catalytic residue [active] 491916012897 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 491916012898 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 491916012899 HIGH motif; other site 491916012900 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 491916012901 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491916012902 active site 491916012903 KMSKS motif; other site 491916012904 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 491916012905 tRNA binding surface [nucleotide binding]; other site 491916012906 Lipopolysaccharide-assembly; Region: LptE; cl01125 491916012907 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 491916012908 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 491916012909 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 491916012910 ParB-like nuclease domain; Region: ParBc; pfam02195 491916012911 KorB domain; Region: KorB; pfam08535 491916012912 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 491916012913 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 491916012914 P-loop; other site 491916012915 Magnesium ion binding site [ion binding]; other site 491916012916 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 491916012917 Magnesium ion binding site [ion binding]; other site 491916012918 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 491916012919 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 491916012920 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 491916012921 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 491916012922 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 491916012923 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 491916012924 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 491916012925 trmE is a tRNA modification GTPase; Region: trmE; cd04164 491916012926 G1 box; other site 491916012927 GTP/Mg2+ binding site [chemical binding]; other site 491916012928 Switch I region; other site 491916012929 G2 box; other site 491916012930 Switch II region; other site 491916012931 G3 box; other site 491916012932 G4 box; other site 491916012933 G5 box; other site 491916012934 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 491916012935 transcription termination factor Rho; Provisional; Region: rho; PRK09376 491916012936 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 491916012937 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 491916012938 RNA binding site [nucleotide binding]; other site 491916012939 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 491916012940 multimer interface [polypeptide binding]; other site 491916012941 Walker A motif; other site 491916012942 ATP binding site [chemical binding]; other site 491916012943 Walker B motif; other site 491916012944 Predicted membrane protein [Function unknown]; Region: COG1981 491916012945 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 491916012946 substrate binding site [chemical binding]; other site 491916012947 active site 491916012948 yib00001; insertion sequence:Transposase, IS4-like 491916012949 yib00002; insertion sequence:transposase 491916012950 yib00003; insertion sequence:Integrase, catalytic core 491916012951 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 491916012952 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 491916012953 catalytic residues [active] 491916012954 catalytic nucleophile [active] 491916012955 Presynaptic Site I dimer interface [polypeptide binding]; other site 491916012956 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 491916012957 Synaptic Flat tetramer interface [polypeptide binding]; other site 491916012958 Synaptic Site I dimer interface [polypeptide binding]; other site 491916012959 DNA binding site [nucleotide binding] 491916012960 yhb00005 491916012961 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 491916012962 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 491916012963 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 491916012964 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916012965 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 491916012966 ATP binding site [chemical binding]; other site 491916012967 substrate binding site [chemical binding]; other site 491916012968 yhb00009 491916012969 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 491916012970 Ligand Binding Site [chemical binding]; other site 491916012971 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 491916012972 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 491916012973 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 491916012974 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 491916012975 5' RNA guide strand anchoring site; other site 491916012976 active site 491916012977 TIR domain; Region: TIR_2; pfam13676 491916012978 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 491916012979 Part of AAA domain; Region: AAA_19; pfam13245 491916012980 Family description; Region: UvrD_C_2; pfam13538 491916012981 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 491916012982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916012983 Walker A/P-loop; other site 491916012984 ATP binding site [chemical binding]; other site 491916012985 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 491916012986 putative active site [active] 491916012987 putative metal-binding site [ion binding]; other site 491916012988 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 491916012989 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 491916012990 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491916012991 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 491916012992 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 491916012993 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916012994 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916012995 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916012996 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 491916012997 non-specific DNA binding site [nucleotide binding]; other site 491916012998 salt bridge; other site 491916012999 sequence-specific DNA binding site [nucleotide binding]; other site 491916013000 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 491916013001 Uncharacterized conserved protein [Function unknown]; Region: COG5397 491916013002 ypb00010 491916013003 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 491916013004 Ligand Binding Site [chemical binding]; other site 491916013005 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 491916013006 yhb00026 491916013007 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491916013008 NAD(P) binding site [chemical binding]; other site 491916013009 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 491916013010 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491916013011 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 491916013012 protein binding site [polypeptide binding]; other site 491916013013 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 491916013014 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 491916013015 BON domain; Region: BON; pfam04972 491916013016 BON domain; Region: BON; pfam04972 491916013017 BON domain; Region: BON; pfam04972 491916013018 ypb00013 491916013019 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 491916013020 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 491916013021 malonyl-CoA binding site [chemical binding]; other site 491916013022 dimer interface [polypeptide binding]; other site 491916013023 active site 491916013024 product binding site; other site 491916013025 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 491916013026 BON domain; Region: BON; pfam04972 491916013027 yib00004; insertion sequence:transposase 491916013028 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 491916013029 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 491916013030 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 491916013031 Avidin family; Region: Avidin; pfam01382 491916013032 yib00005; insertion sequence:Transposase, IS66 491916013033 ypb00018 491916013034 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 491916013035 RibD C-terminal domain; Region: RibD_C; cl17279 491916013036 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 491916013037 classical (c) SDRs; Region: SDR_c; cd05233 491916013038 NAD(P) binding site [chemical binding]; other site 491916013039 active site 491916013040 classical (c) SDRs; Region: SDR_c; cd05233 491916013041 NAD(P) binding site [chemical binding]; other site 491916013042 active site 491916013043 ypb00022 491916013044 yib00006; insertion sequence:Bacterial regulatory protein, LysR 491916013045 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 491916013046 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 491916013047 PA14 domain; Region: PA14; cl08459 491916013048 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 491916013049 yib00007; insertion sequence:transposase 491916013050 yib00008; insertion sequence:transposase 491916013051 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 491916013052 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 491916013053 yib00009; insertion sequence:Integrase, catalytic core, phage 491916013054 yib00010; insertion sequence:Integrase, catalytic core, phage 491916013055 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 491916013056 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491916013057 yib00011; insertion sequence:Transposase, IS66 491916013058 yib00012; insertion sequence:Transposase (), IS66 Orf2 like 491916013059 yib00013; insertion sequence:Transposase IS3/IS911 491916013060 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491916013061 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 491916013062 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491916013063 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491916013064 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 491916013065 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 491916013066 ypb00029 491916013067 yhb00040 491916013068 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 491916013069 PAS domain; Region: PAS_9; pfam13426 491916013070 putative active site [active] 491916013071 heme pocket [chemical binding]; other site 491916013072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 491916013073 HWE histidine kinase; Region: HWE_HK; smart00911 491916013074 ypb00031 491916013075 yib00014; insertion sequence:transposase related protein 491916013076 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 491916013077 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 491916013078 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 491916013079 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 491916013080 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 491916013081 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 491916013082 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 491916013083 Walker A motif; other site 491916013084 ATP binding site [chemical binding]; other site 491916013085 Walker B motif; other site 491916013086 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 491916013087 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 491916013088 type III secretion system protein YscR; Provisional; Region: PRK12797 491916013089 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 491916013090 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 491916013091 Pectate lyase; Region: Pectate_lyase; pfam03211 491916013092 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 491916013093 FHIPEP family; Region: FHIPEP; pfam00771 491916013094 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 491916013095 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 491916013096 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916013097 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 491916013098 non-specific DNA binding site [nucleotide binding]; other site 491916013099 salt bridge; other site 491916013100 sequence-specific DNA binding site [nucleotide binding]; other site 491916013101 GXWXG protein; Region: GXWXG; pfam14231 491916013102 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 491916013103 phosphoglycolate phosphatase, TA0175-type; Region: Pglycolate_arch; TIGR01487 491916013104 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 491916013105 sequence-specific DNA binding site [nucleotide binding]; other site 491916013106 salt bridge; other site 491916013107 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916013108 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916013109 DNA-binding site [nucleotide binding]; DNA binding site 491916013110 FCD domain; Region: FCD; pfam07729 491916013111 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 491916013112 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491916013113 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 491916013114 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916013115 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 491916013116 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916013117 putative ligand binding site [chemical binding]; other site 491916013118 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916013119 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 491916013120 Walker A/P-loop; other site 491916013121 ATP binding site [chemical binding]; other site 491916013122 Q-loop/lid; other site 491916013123 ABC transporter signature motif; other site 491916013124 Walker B; other site 491916013125 D-loop; other site 491916013126 H-loop/switch region; other site 491916013127 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916013128 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 491916013129 TM-ABC transporter signature motif; other site 491916013130 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 491916013131 TM-ABC transporter signature motif; other site 491916013132 succinic semialdehyde dehydrogenase; Region: PLN02278 491916013133 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 491916013134 tetramerization interface [polypeptide binding]; other site 491916013135 NAD(P) binding site [chemical binding]; other site 491916013136 catalytic residues [active] 491916013137 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 491916013138 putative NTP binding site [chemical binding]; other site 491916013139 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 491916013140 putative nucleic acid binding site [nucleotide binding]; other site 491916013141 yib00015; insertion sequence:transposase 491916013142 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 491916013143 HAMP domain; Region: HAMP; pfam00672 491916013144 dimerization interface [polypeptide binding]; other site 491916013145 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916013146 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916013147 dimer interface [polypeptide binding]; other site 491916013148 putative CheW interface [polypeptide binding]; other site 491916013149 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916013150 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916013151 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 491916013152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916013153 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 491916013154 dimerization interface [polypeptide binding]; other site 491916013155 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916013156 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916013157 dimer interface [polypeptide binding]; other site 491916013158 putative CheW interface [polypeptide binding]; other site 491916013159 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 491916013160 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916013161 putative ligand binding site [chemical binding]; other site 491916013162 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 491916013163 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916013164 putative active site [active] 491916013165 heme pocket [chemical binding]; other site 491916013166 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 491916013167 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916013168 putative active site [active] 491916013169 heme pocket [chemical binding]; other site 491916013170 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 491916013171 putative active site [active] 491916013172 heme pocket [chemical binding]; other site 491916013173 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916013174 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916013175 metal binding site [ion binding]; metal-binding site 491916013176 active site 491916013177 I-site; other site 491916013178 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 491916013179 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491916013180 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 491916013181 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 491916013182 NAD binding site [chemical binding]; other site 491916013183 catalytic Zn binding site [ion binding]; other site 491916013184 substrate binding site [chemical binding]; other site 491916013185 structural Zn binding site [ion binding]; other site 491916013186 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 491916013187 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916013188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916013189 DNA-binding site [nucleotide binding]; DNA binding site 491916013190 FCD domain; Region: FCD; pfam07729 491916013191 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 491916013192 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916013193 catalytic site [active] 491916013194 yib00016; insertion sequence:Transposase, mutator type 491916013195 yib00017; insertion sequence:Transposase, mutator type 491916013196 yib00018; insertion sequence:Transposase, mutator type 491916013197 short chain dehydrogenase; Provisional; Region: PRK06138 491916013198 classical (c) SDRs; Region: SDR_c; cd05233 491916013199 NAD(P) binding site [chemical binding]; other site 491916013200 active site 491916013201 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 491916013202 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 491916013203 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 491916013204 active site 491916013205 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 491916013206 dimer interface [polypeptide binding]; other site 491916013207 non-prolyl cis peptide bond; other site 491916013208 insertion regions; other site 491916013209 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 491916013210 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916013211 putative ligand binding site [chemical binding]; other site 491916013212 aminotransferase; Validated; Region: PRK09148 491916013213 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 491916013214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916013215 homodimer interface [polypeptide binding]; other site 491916013216 catalytic residue [active] 491916013217 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916013218 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916013219 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491916013220 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 491916013221 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 491916013222 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 491916013223 dimerization interface [polypeptide binding]; other site 491916013224 active site 491916013225 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 491916013226 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 491916013227 catalytic Zn binding site [ion binding]; other site 491916013228 NAD binding site [chemical binding]; other site 491916013229 structural Zn binding site [ion binding]; other site 491916013230 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 491916013231 catalytic core [active] 491916013232 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 491916013233 putative ligand binding site [chemical binding]; other site 491916013234 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916013235 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916013236 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916013237 Walker A/P-loop; other site 491916013238 ATP binding site [chemical binding]; other site 491916013239 Q-loop/lid; other site 491916013240 ABC transporter signature motif; other site 491916013241 Walker B; other site 491916013242 D-loop; other site 491916013243 H-loop/switch region; other site 491916013244 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916013245 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916013246 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 491916013247 TM-ABC transporter signature motif; other site 491916013248 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916013249 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 491916013250 TM-ABC transporter signature motif; other site 491916013251 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 491916013252 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 491916013253 catalytic Zn binding site [ion binding]; other site 491916013254 NAD binding site [chemical binding]; other site 491916013255 structural Zn binding site [ion binding]; other site 491916013256 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 491916013257 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 491916013258 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916013259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916013260 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916013261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916013262 Nitrate and nitrite sensing; Region: NIT; pfam08376 491916013263 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916013264 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916013265 dimer interface [polypeptide binding]; other site 491916013266 putative CheW interface [polypeptide binding]; other site 491916013267 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 491916013268 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916013269 putative active site [active] 491916013270 heme pocket [chemical binding]; other site 491916013271 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 491916013272 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916013273 putative active site [active] 491916013274 heme pocket [chemical binding]; other site 491916013275 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 491916013276 putative active site [active] 491916013277 heme pocket [chemical binding]; other site 491916013278 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916013279 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916013280 metal binding site [ion binding]; metal-binding site 491916013281 active site 491916013282 I-site; other site 491916013283 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 491916013284 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 491916013285 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 491916013286 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 491916013287 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 491916013288 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 491916013289 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 491916013290 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 491916013291 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 491916013292 Type IV secretion system proteins; Region: T4SS; pfam07996 491916013293 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 491916013294 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 491916013295 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 491916013296 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 491916013297 VirB7 interaction site; other site 491916013298 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 491916013299 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 491916013300 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 491916013301 Walker A motif; other site 491916013302 hexamer interface [polypeptide binding]; other site 491916013303 ATP binding site [chemical binding]; other site 491916013304 Walker B motif; other site 491916013305 PIN domain; Region: PIN_3; pfam13470 491916013306 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 491916013307 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 491916013308 yhb00079 491916013309 Protein of unknown function (DUF736); Region: DUF736; cl02303 491916013310 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 491916013311 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 491916013312 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 491916013313 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 491916013314 Walker A motif; other site 491916013315 ATP binding site [chemical binding]; other site 491916013316 Walker B motif; other site 491916013317 Conjugal transfer protein TraD; Region: TraD; pfam06412 491916013318 TraC-like protein; Region: TraC; pfam07820 491916013319 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 491916013320 MobA/MobL family; Region: MobA_MobL; pfam03389 491916013321 AAA domain; Region: AAA_30; pfam13604 491916013322 Family description; Region: UvrD_C_2; pfam13538 491916013323 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 491916013324 S-adenosylmethionine binding site [chemical binding]; other site 491916013325 ypb00056 491916013326 H+ Antiporter protein; Region: 2A0121; TIGR00900 491916013327 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916013328 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 491916013329 non-specific DNA binding site [nucleotide binding]; other site 491916013330 salt bridge; other site 491916013331 sequence-specific DNA binding site [nucleotide binding]; other site 491916013332 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 491916013333 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 491916013334 putative active site [active] 491916013335 putative metal binding site [ion binding]; other site 491916013336 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 491916013337 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 491916013338 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 491916013339 substrate binding pocket [chemical binding]; other site 491916013340 membrane-bound complex binding site; other site 491916013341 hinge residues; other site 491916013342 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 491916013343 dimer interface [polypeptide binding]; other site 491916013344 conserved gate region; other site 491916013345 putative PBP binding loops; other site 491916013346 ABC-ATPase subunit interface; other site 491916013347 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916013348 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 491916013349 dimer interface [polypeptide binding]; other site 491916013350 conserved gate region; other site 491916013351 putative PBP binding loops; other site 491916013352 ABC-ATPase subunit interface; other site 491916013353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916013354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916013355 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 491916013356 dimerization interface [polypeptide binding]; other site 491916013357 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 491916013358 yib00019; insertion sequence:transposase 491916013359 Helix-turn-helix domain; Region: HTH_17; pfam12728 491916013360 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 491916013361 phasin; Region: phasin_2; TIGR01985 491916013362 TraH_2; Region: TraH_2; cl17600 491916013363 Leucine rich repeat; Region: LRR_8; pfam13855 491916013364 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 491916013365 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 491916013366 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 491916013367 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 491916013368 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 491916013369 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 491916013370 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 491916013371 Protein of unknown function (DUF796); Region: DUF796; pfam05638 491916013372 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 491916013373 Protein of unknown function (DUF877); Region: DUF877; pfam05943 491916013374 Protein of unknown function (DUF770); Region: DUF770; pfam05591 491916013375 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 491916013376 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 491916013377 yhb00114 491916013378 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 491916013379 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 491916013380 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 491916013381 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 491916013382 hypothetical protein; Provisional; Region: PRK07033 491916013383 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 491916013384 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916013385 ligand binding site [chemical binding]; other site 491916013386 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 491916013387 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 491916013388 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 491916013389 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 491916013390 ypb00059 491916013391 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916013392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916013393 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 491916013394 putative substrate binding pocket [chemical binding]; other site 491916013395 putative dimerization interface [polypeptide binding]; other site 491916013396 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 491916013397 FeS/SAM binding site; other site 491916013398 Nif-specific regulatory protein; Region: nifA; TIGR01817 491916013399 SnoaL-like domain; Region: SnoaL_4; pfam13577 491916013400 short chain dehydrogenase; Validated; Region: PRK06484 491916013401 yib00020; insertion sequence:Transposase IS3/IS911 491916013402 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; cl17784 491916013403 yib00021; insertion sequence:Integrase, catalytic core 491916013404 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; cl17784 491916013405 Cation transport protein; Region: TrkH; cl17365 491916013406 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; cl17784 491916013407 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; cl17784 491916013408 yib00022; insertion sequence:Integrase, catalytic core 491916013409 yib00023; insertion sequence:Integrase, catalytic core 491916013410 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 491916013411 carboxyltransferase (CT) interaction site; other site 491916013412 biotinylation site [posttranslational modification]; other site 491916013413 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_cladeC; cd03378 491916013414 active site clefts [active] 491916013415 zinc binding site [ion binding]; other site 491916013416 dimer interface [polypeptide binding]; other site 491916013417 yib00024; insertion sequence:Transposase (), IS66 Orf2 like 491916013418 yib00025; insertion sequence:Transposase, IS66 491916013419 Cation efflux family; Region: Cation_efflux; cl00316 491916013420 probable nitrogen fixation protein; Region: TIGR02935 491916013421 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 491916013422 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 491916013423 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 491916013424 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 491916013425 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 491916013426 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 491916013427 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 491916013428 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 491916013429 MoFe protein beta/alpha subunit interactions; other site 491916013430 Beta subunit P cluster binding residues; other site 491916013431 MoFe protein beta subunit/Fe protein contacts; other site 491916013432 MoFe protein dimer/ dimer interactions; other site 491916013433 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 491916013434 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 491916013435 MoFe protein alpha/beta subunit interactions; other site 491916013436 Alpha subunit P cluster binding residues; other site 491916013437 FeMoco binding residues [chemical binding]; other site 491916013438 MoFe protein alpha subunit/Fe protein contacts; other site 491916013439 MoFe protein dimer/ dimer interactions; other site 491916013440 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 491916013441 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 491916013442 Nucleotide-binding sites [chemical binding]; other site 491916013443 Walker A motif; other site 491916013444 Switch I region of nucleotide binding site; other site 491916013445 Fe4S4 binding sites [ion binding]; other site 491916013446 Switch II region of nucleotide binding site; other site 491916013447 SnoaL-like domain; Region: SnoaL_4; pfam13577 491916013448 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 491916013449 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 491916013450 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 491916013451 Cytochrome P450; Region: p450; cl12078 491916013452 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 491916013453 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916013454 ligand binding site [chemical binding]; other site 491916013455 flexible hinge region; other site 491916013456 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 491916013457 putative switch regulator; other site 491916013458 non-specific DNA interactions [nucleotide binding]; other site 491916013459 DNA binding site [nucleotide binding] 491916013460 sequence specific DNA binding site [nucleotide binding]; other site 491916013461 putative cAMP binding site [chemical binding]; other site 491916013462 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 491916013463 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 491916013464 catalytic triad [active] 491916013465 dimer interface [polypeptide binding]; other site 491916013466 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 491916013467 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 491916013468 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 491916013469 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 491916013470 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 491916013472 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 491916013473 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 491916013474 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916013475 catalytic residue [active] 491916013476 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 491916013477 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 491916013478 Ligand binding site [chemical binding]; other site 491916013479 Electron transfer flavoprotein domain; Region: ETF; pfam01012 491916013480 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 491916013481 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 491916013482 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 491916013483 oxidoreductase; Provisional; Region: PRK10015 491916013484 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491916013485 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 491916013486 Nif-specific regulatory protein; Region: nifA; TIGR01817 491916013487 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 491916013488 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 491916013489 Walker A motif; other site 491916013490 ATP binding site [chemical binding]; other site 491916013491 Walker B motif; other site 491916013492 arginine finger; other site 491916013493 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491916013494 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 491916013495 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 491916013496 FeS/SAM binding site; other site 491916013497 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 491916013498 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 491916013499 Cell-cell adhesion domain; Region: Dicty_CAD; pfam05720 491916013500 NifZ domain; Region: NifZ; pfam04319 491916013501 Nitrogen fixation protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NifU; COG5554 491916013502 SIR2-like domain; Region: SIR2_2; pfam13289 491916013503 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 491916013504 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 491916013505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916013506 homodimer interface [polypeptide binding]; other site 491916013507 catalytic residue [active] 491916013508 bifunctional ypb00067 491916013509 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916013510 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 491916013511 non-specific DNA binding site [nucleotide binding]; other site 491916013512 salt bridge; other site 491916013513 sequence-specific DNA binding site [nucleotide binding]; other site 491916013514 yib00026; insertion sequence:Integrase, catalytic core 491916013515 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916013516 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 491916013517 non-specific DNA binding site [nucleotide binding]; other site 491916013518 salt bridge; other site 491916013519 sequence-specific DNA binding site [nucleotide binding]; other site 491916013520 yib00027; insertion sequence:transposase 491916013521 yib00028; insertion sequence:Resolvase, N-terminal 491916013522 yib00029; insertion sequence:Transposase, IS66 491916013523 yib00030; insertion sequence:Transposase, IS66 491916013524 yib00031; insertion sequence:Transposase (), IS66 Orf2 like 491916013525 yib00032; insertion sequence:Transposase IS3/IS911 491916013526 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 491916013527 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491916013528 substrate binding pocket [chemical binding]; other site 491916013529 chain length determination region; other site 491916013530 substrate-Mg2+ binding site; other site 491916013531 catalytic residues [active] 491916013532 aspartate-rich region 1; other site 491916013533 active site lid residues [active] 491916013534 aspartate-rich region 2; other site 491916013535 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 491916013536 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 491916013537 homotetramer interface [polypeptide binding]; other site 491916013538 FMN binding site [chemical binding]; other site 491916013539 homodimer contacts [polypeptide binding]; other site 491916013540 putative active site [active] 491916013541 putative substrate binding site [chemical binding]; other site 491916013542 Terpene cyclases, Class 1; Region: Terpene_cyclase_C1; cd00868 491916013543 substrate binding pocket [chemical binding]; other site 491916013544 substrate-Mg2+ binding site; other site 491916013545 aspartate-rich region 1; other site 491916013546 aspartate-rich region 2; other site 491916013547 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 491916013548 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 491916013549 Cytochrome P450; Region: p450; cl12078 491916013550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916013551 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 491916013552 NAD(P) binding site [chemical binding]; other site 491916013553 active site 491916013554 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 491916013555 Cytochrome P450; Region: p450; cl12078 491916013556 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 491916013557 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 491916013558 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 491916013559 Cytochrome P450; Region: p450; cl12078 491916013560 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 491916013561 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 491916013562 catalytic residue [active] 491916013563 Exopolysaccharide production repressor; Region: SyrA; pfam11089 491916013564 Rop-like; Region: Rop-like; cl02247 491916013565 NifQ; Region: NifQ; pfam04891 491916013566 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 491916013567 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 491916013568 Nucleotide-binding sites [chemical binding]; other site 491916013569 Walker A motif; other site 491916013570 Switch I region of nucleotide binding site; other site 491916013571 Fe4S4 binding sites [ion binding]; other site 491916013572 Switch II region of nucleotide binding site; other site 491916013573 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 491916013574 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 491916013575 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 491916013576 FeS/SAM binding site; other site 491916013577 HemN C-terminal domain; Region: HemN_C; pfam06969 491916013578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916013580 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 491916013581 yib00033; insertion sequence:Transposase, IS66 491916013582 yib00034; insertion sequence:Transposase (), IS66 Orf2 like 491916013583 yib00035; insertion sequence:transposase 491916013584 yib00036; insertion sequence:IstB-like ATP-binding protein 491916013585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916013586 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916013587 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 491916013588 putative substrate binding pocket [chemical binding]; other site 491916013589 putative dimerization interface [polypeptide binding]; other site 491916013590 Cupin domain; Region: Cupin_2; pfam07883 491916013591 ABC-2 type transporter; Region: ABC2_membrane; cl17235 491916013592 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 491916013593 ATP-binding ABC transporter family nodulation protein NodI; Region: nodI; TIGR01288 491916013594 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 491916013595 Walker A/P-loop; other site 491916013596 ATP binding site [chemical binding]; other site 491916013597 Q-loop/lid; other site 491916013598 ABC transporter signature motif; other site 491916013599 Walker B; other site 491916013600 D-loop; other site 491916013601 H-loop/switch region; other site 491916013602 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 491916013603 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491916013604 S-adenosylmethionine binding site [chemical binding]; other site 491916013605 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 491916013606 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 491916013607 DXD motif; other site 491916013608 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 491916013609 chitooligosaccharide deacetylase NodB; Region: nodulat_NodB; TIGR04243 491916013611 yib00037; insertion sequence:Integrase, catalytic core 491916013612 yib00038; insertion sequence:Transposase IS3/IS911 491916013614 yib00039; insertion sequence:transposase 491916013615 yib00040; insertion sequence:transposase 491916013616 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916013617 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 491916013618 ligand binding site [chemical binding]; other site 491916013619 flexible hinge region; other site 491916013620 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 491916013621 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 491916013622 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 491916013623 metal-binding site [ion binding] 491916013624 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491916013625 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 491916013626 motif II; other site 491916013627 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 491916013628 FixH; Region: FixH; pfam05751 491916013629 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 491916013630 4Fe-4S binding domain; Region: Fer4_5; pfam12801 491916013631 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 491916013632 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 491916013633 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 491916013634 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 491916013635 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 491916013636 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 491916013637 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 491916013638 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 491916013639 Low-spin heme binding site [chemical binding]; other site 491916013640 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 491916013641 Putative water exit pathway; other site 491916013642 Binuclear center (active site) [active] 491916013643 Putative proton exit pathway; other site 491916013645 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 491916013646 pseudoazurin; Region: pseudoazurin; TIGR02375 491916013647 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 491916013648 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 491916013649 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 491916013650 FeS/SAM binding site; other site 491916013651 HemN C-terminal domain; Region: HemN_C; pfam06969 491916013652 phasin; Region: phasin_2; TIGR01985 491916013653 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 491916013654 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 491916013655 Rop-like; Region: Rop-like; pfam05082 491916013656 probable nitrogen fixation protein; Region: TIGR02935 491916013657 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 491916013658 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 491916013659 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 491916013660 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 491916013661 MoFe protein beta/alpha subunit interactions; other site 491916013662 Beta subunit P cluster binding residues; other site 491916013663 MoFe protein beta subunit/Fe protein contacts; other site 491916013664 MoFe protein dimer/ dimer interactions; other site 491916013665 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 491916013666 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 491916013667 MoFe protein alpha/beta subunit interactions; other site 491916013668 Alpha subunit P cluster binding residues; other site 491916013669 FeMoco binding residues [chemical binding]; other site 491916013670 MoFe protein alpha subunit/Fe protein contacts; other site 491916013671 MoFe protein dimer/ dimer interactions; other site 491916013672 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 491916013673 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 491916013674 Nucleotide-binding sites [chemical binding]; other site 491916013675 Walker A motif; other site 491916013676 Switch I region of nucleotide binding site; other site 491916013677 Fe4S4 binding sites [ion binding]; other site 491916013678 Switch II region of nucleotide binding site; other site 491916013679 yib00041; insertion sequence:transposase ISRm10-1 491916013680 yib00042; insertion sequence:transposase 491916013681 Nodulation protein A (NodA); Region: NodA; pfam02474 491916013682 yib00043; insertion sequence:Integrase, catalytic core 491916013683 yib00044; insertion sequence:Transposase IS3/IS911 491916013684 ypb00073 491916013685 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 491916013686 Cupin domain; Region: Cupin_2; pfam07883 491916013687 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491916013688 tRNA synthetases class I (M); Region: tRNA-synt_1g; pfam09334 491916013689 active site 491916013690 nucleotide binding site [chemical binding]; other site 491916013691 HIGH motif; other site 491916013692 KMSKS motif; other site 491916013693 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916013694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916013695 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 491916013696 putative substrate binding pocket [chemical binding]; other site 491916013697 putative dimerization interface [polypeptide binding]; other site 491916013698 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916013699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916013700 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 491916013701 putative substrate binding pocket [chemical binding]; other site 491916013702 putative dimerization interface [polypeptide binding]; other site 491916013703 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 491916013704 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 491916013705 yib00045; insertion sequence:Transposase IS3/IS911 491916013706 yib00046; insertion sequence:transposase 491916013707 yib00047; insertion sequence:transposase 491916013708 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 491916013709 putative deacylase active site [active] 491916013710 yib00048; insertion sequence:Integrase, catalytic core 491916013711 yib00049; insertion sequence:Transposase IS3/IS911 491916013712 yib00050; insertion sequence:Transposase, Tn3 491916013713 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 491916013714 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916013715 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 491916013716 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 491916013717 putative active site [active] 491916013718 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916013719 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916013720 Walker A/P-loop; other site 491916013721 ATP binding site [chemical binding]; other site 491916013722 Q-loop/lid; other site 491916013723 ABC transporter signature motif; other site 491916013724 Walker B; other site 491916013725 D-loop; other site 491916013726 H-loop/switch region; other site 491916013727 yib00051; insertion sequence:Integrase, catalytic core 491916013728 probable nitrogen fixation protein; Region: TIGR02935 491916013729 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 491916013731 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 491916013732 amphipathic channel; other site 491916013733 Asn-Pro-Ala signature motifs; other site 491916013734 phasin; Region: phasin_2; TIGR01985 491916013735 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916013736 active site 491916013737 SynChlorMet cassette radical SAM/SPASM protein ScmF; Region: SCM_rSAM_ScmF; TIGR04251 491916013738 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 491916013739 FeS/SAM binding site; other site 491916013740 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 491916013741 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 491916013742 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 491916013743 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916013744 active site 491916013745 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491916013746 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 491916013747 NAD(P) binding site [chemical binding]; other site 491916013749 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 491916013750 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 491916013751 DNA binding residues [nucleotide binding] 491916013752 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 491916013753 P-loop; other site 491916013754 Magnesium ion binding site [ion binding]; other site 491916013755 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 491916013756 Magnesium ion binding site [ion binding]; other site 491916013757 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 491916013758 ParB-like nuclease domain; Region: ParB; smart00470 491916013759 replication initiation protein RepC; Provisional; Region: PRK13824 491916013760 Replication protein C N-terminal domain; Region: RP-C; pfam03428 491916013761 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 491916013762 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 491916013763 dimerization interface [polypeptide binding]; other site 491916013764 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916013765 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916013766 dimer interface [polypeptide binding]; other site 491916013767 putative CheW interface [polypeptide binding]; other site 491916013768 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 491916013769 Cytochrome c; Region: Cytochrom_C; pfam00034 491916013770 ProQ/FINO family; Region: ProQ; pfam04352 491916013771 pantoate--beta-alanine ligase; Region: panC; TIGR00018 491916013772 Pantoate-beta-alanine ligase; Region: PanC; cd00560 491916013773 active site 491916013774 ATP-binding site [chemical binding]; other site 491916013775 pantoate-binding site; other site 491916013776 HXXH motif; other site 491916013777 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 491916013778 oligomerization interface [polypeptide binding]; other site 491916013779 active site 491916013780 metal binding site [ion binding]; metal-binding site 491916013781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916013782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916013783 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 491916013784 dimerization interface [polypeptide binding]; other site 491916013785 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 491916013786 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 491916013787 dimer interface [polypeptide binding]; other site 491916013788 active site 491916013789 heme binding site [chemical binding]; other site 491916013790 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 491916013791 short chain dehydrogenase; Provisional; Region: PRK06500 491916013792 classical (c) SDRs; Region: SDR_c; cd05233 491916013793 NAD(P) binding site [chemical binding]; other site 491916013794 active site 491916013795 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 491916013796 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 491916013797 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 491916013798 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 491916013799 putative NAD(P) binding site [chemical binding]; other site 491916013800 putative active site [active] 491916013801 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916013802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916013803 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 491916013804 dimerization interface [polypeptide binding]; other site 491916013805 substrate binding pocket [chemical binding]; other site 491916013806 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 491916013807 Predicted transcriptional regulators [Transcription]; Region: COG1733 491916013808 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491916013809 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 491916013810 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 491916013811 NADP binding site [chemical binding]; other site 491916013812 dimer interface [polypeptide binding]; other site 491916013813 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 491916013814 active site 491916013815 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 491916013816 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 491916013817 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 491916013818 acyl-activating enzyme (AAE) consensus motif; other site 491916013819 acyl-activating enzyme (AAE) consensus motif; other site 491916013820 AMP binding site [chemical binding]; other site 491916013821 active site 491916013822 CoA binding site [chemical binding]; other site 491916013823 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 491916013824 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 491916013825 dimer interface [polypeptide binding]; other site 491916013826 active site 491916013827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916013828 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 491916013829 substrate binding pocket [chemical binding]; other site 491916013830 dimerization interface [polypeptide binding]; other site 491916013831 Cupin domain; Region: Cupin_2; pfam07883 491916013832 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 491916013833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916013834 NAD(P) binding site [chemical binding]; other site 491916013835 active site 491916013836 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491916013837 methionine gamma-lyase; Validated; Region: PRK07049 491916013838 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 491916013839 homodimer interface [polypeptide binding]; other site 491916013840 substrate-cofactor binding pocket; other site 491916013841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916013842 catalytic residue [active] 491916013843 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 491916013844 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916013845 yic00001; insertion sequence:Transposase, IS4-like 491916013846 AAA domain; Region: AAA_18; pfam13238 491916013847 NADH kinase; Region: PLN02929 491916013848 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 491916013849 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 491916013850 nudix motif; other site 491916013851 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 491916013852 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 491916013853 putative dimerization interface [polypeptide binding]; other site 491916013854 putative ligand binding site [chemical binding]; other site 491916013855 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916013856 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916013857 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 491916013858 dimer interface [polypeptide binding]; other site 491916013859 conserved gate region; other site 491916013860 putative PBP binding loops; other site 491916013861 ABC-ATPase subunit interface; other site 491916013862 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916013863 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 491916013864 dimer interface [polypeptide binding]; other site 491916013865 conserved gate region; other site 491916013866 putative PBP binding loops; other site 491916013867 ABC-ATPase subunit interface; other site 491916013868 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 491916013869 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 491916013870 substrate binding [chemical binding]; other site 491916013871 active site 491916013872 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 491916013873 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 491916013874 dimerization interface [polypeptide binding]; other site 491916013875 metal binding site [ion binding]; metal-binding site 491916013876 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916013877 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 491916013878 DNA binding residues [nucleotide binding] 491916013879 Cytochrome P450; Region: p450; cl12078 491916013880 yhc00015 491916013881 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 491916013882 RNA polymerase sigma factor; Provisional; Region: PRK12536 491916013883 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916013884 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 491916013885 DNA binding residues [nucleotide binding] 491916013886 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; cl00859 491916013887 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 491916013888 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 491916013889 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 491916013890 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 491916013891 Moco binding site; other site 491916013892 metal coordination site [ion binding]; other site 491916013893 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916013894 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 491916013895 ligand binding site [chemical binding]; other site 491916013896 flexible hinge region; other site 491916013897 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 491916013898 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916013899 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 491916013900 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916013901 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; cl00047 491916013902 ligand binding site [chemical binding]; other site 491916013903 flexible hinge region; other site 491916013904 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 491916013905 ypc00022 491916013906 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916013907 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 491916013908 ligand binding site [chemical binding]; other site 491916013909 flexible hinge region; other site 491916013910 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 491916013911 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916013912 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916013913 DNA-binding site [nucleotide binding]; DNA binding site 491916013914 FCD domain; Region: FCD; pfam07729 491916013915 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491916013916 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 491916013917 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 491916013918 DctM-like transporters; Region: DctM; pfam06808 491916013919 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 491916013920 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 491916013921 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 491916013922 putative NAD(P) binding site [chemical binding]; other site 491916013923 catalytic Zn binding site [ion binding]; other site 491916013924 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491916013925 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916013926 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916013927 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916013928 inhibitor site; inhibition site 491916013929 active site 491916013930 dimer interface [polypeptide binding]; other site 491916013931 catalytic residue [active] 491916013932 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916013933 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916013934 DNA-binding site [nucleotide binding]; DNA binding site 491916013935 FCD domain; Region: FCD; pfam07729 491916013936 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916013937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916013938 metal binding site [ion binding]; metal-binding site 491916013939 active site 491916013940 I-site; other site 491916013941 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 491916013942 HWE histidine kinase; Region: HWE_HK; pfam07536 491916013943 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916013944 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 491916013945 active site 491916013946 phosphorylation site [posttranslational modification] 491916013947 intermolecular recognition site; other site 491916013948 dimerization interface [polypeptide binding]; other site 491916013949 GXWXG protein; Region: GXWXG; pfam14231 491916013950 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 491916013951 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 491916013952 putative active site [active] 491916013953 putative metal binding site [ion binding]; other site 491916013954 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 491916013955 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; cl00447 491916013956 nudix motif; other site 491916013957 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916013958 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916013959 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491916013960 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; cl10015 491916013961 homotrimer interaction site [polypeptide binding]; other site 491916013962 putative active site [active] 491916013963 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 491916013964 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 491916013965 putative active site pocket [active] 491916013966 dimerization interface [polypeptide binding]; other site 491916013967 putative catalytic residue [active] 491916013968 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916013969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916013970 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 491916013971 putative effector binding pocket; other site 491916013972 dimerization interface [polypeptide binding]; other site 491916013973 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 491916013974 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916013975 Zn binding site [ion binding]; other site 491916013976 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 491916013977 Zn binding site [ion binding]; other site 491916013978 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 491916013979 Isochorismatase family; Region: Isochorismatase; pfam00857 491916013980 catalytic triad [active] 491916013981 dimer interface [polypeptide binding]; other site 491916013982 conserved cis-peptide bond; other site 491916013983 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 491916013984 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 491916013985 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 491916013986 active site 491916013987 Predicted membrane protein [Function unknown]; Region: COG2259 491916013988 Transmembrane secretion effector; Region: MFS_3; pfam05977 491916013989 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 491916013990 putative substrate translocation pore; other site 491916013991 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 491916013992 Isochorismatase family; Region: Isochorismatase; pfam00857 491916013993 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 491916013994 catalytic triad [active] 491916013995 conserved cis-peptide bond; other site 491916013996 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 491916013997 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916013998 Walker A/P-loop; other site 491916013999 ATP binding site [chemical binding]; other site 491916014000 Q-loop/lid; other site 491916014001 ABC transporter signature motif; other site 491916014002 Walker B; other site 491916014003 D-loop; other site 491916014004 H-loop/switch region; other site 491916014005 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916014006 Isochorismatase family; Region: Isochorismatase; pfam00857 491916014007 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 491916014008 catalytic triad [active] 491916014009 conserved cis-peptide bond; other site 491916014010 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916014011 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 491916014012 TM-ABC transporter signature motif; other site 491916014013 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916014014 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 491916014015 TM-ABC transporter signature motif; other site 491916014016 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 491916014017 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 491916014018 putative ligand binding site [chemical binding]; other site 491916014019 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916014020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916014021 DNA-binding site [nucleotide binding]; DNA binding site 491916014022 FCD domain; Region: FCD; pfam07729 491916014023 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; cl10015 491916014024 homotrimer interaction site [polypeptide binding]; other site 491916014025 putative active site [active] 491916014026 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 491916014027 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916014028 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 491916014029 FAD binding domain; Region: FAD_binding_4; pfam01565 491916014030 cytosine deaminase-like protein; Validated; Region: PRK07583 491916014031 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 491916014032 active site 491916014033 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491916014034 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 491916014035 dimer interface [polypeptide binding]; other site 491916014036 conserved gate region; other site 491916014037 ABC-ATPase subunit interface; other site 491916014038 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491916014039 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491916014040 Walker A/P-loop; other site 491916014041 ATP binding site [chemical binding]; other site 491916014042 Q-loop/lid; other site 491916014043 ABC transporter signature motif; other site 491916014044 Walker B; other site 491916014045 D-loop; other site 491916014046 H-loop/switch region; other site 491916014047 NMT1/THI5 like; Region: NMT1; pfam09084 491916014048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916014049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916014050 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 491916014051 dimerization interface [polypeptide binding]; other site 491916014052 Creatinine amidohydrolase; Region: Creatininase; pfam02633 491916014053 allophanate hydrolase; Provisional; Region: PRK08186 491916014054 Amidase; Region: Amidase; cl11426 491916014055 urea carboxylase; Region: urea_carbox; TIGR02712 491916014056 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491916014057 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491916014058 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 491916014059 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 491916014060 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 491916014061 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 491916014062 carboxyltransferase (CT) interaction site; other site 491916014063 biotinylation site [posttranslational modification]; other site 491916014064 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 491916014065 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 491916014066 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 491916014067 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 491916014068 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491916014069 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 491916014070 Walker A/P-loop; other site 491916014071 ATP binding site [chemical binding]; other site 491916014072 Q-loop/lid; other site 491916014073 ABC transporter signature motif; other site 491916014074 Walker B; other site 491916014075 D-loop; other site 491916014076 H-loop/switch region; other site 491916014077 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491916014078 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 491916014079 dimer interface [polypeptide binding]; other site 491916014080 conserved gate region; other site 491916014081 putative PBP binding loops; other site 491916014082 ABC-ATPase subunit interface; other site 491916014083 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 491916014084 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 491916014085 Divergent AAA domain; Region: AAA_4; pfam04326 491916014086 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 491916014087 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 491916014088 RibD C-terminal domain; Region: RibD_C; cl17279 491916014089 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 491916014090 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916014091 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 491916014092 S-adenosylmethionine binding site [chemical binding]; other site 491916014093 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 491916014094 Cupin domain; Region: Cupin_2; cl17218 491916014095 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916014096 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916014097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916014098 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916014099 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916014100 DNA binding site [nucleotide binding] 491916014101 domain linker motif; other site 491916014102 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 491916014103 putative dimerization interface [polypeptide binding]; other site 491916014104 putative ligand binding site [chemical binding]; other site 491916014105 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916014106 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 491916014107 putative NAD(P) binding site [chemical binding]; other site 491916014108 active site 491916014109 putative substrate binding site [chemical binding]; other site 491916014110 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 491916014111 classical (c) SDRs; Region: SDR_c; cd05233 491916014112 NAD(P) binding site [chemical binding]; other site 491916014113 active site 491916014114 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916014115 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916014116 Walker A/P-loop; other site 491916014117 ATP binding site [chemical binding]; other site 491916014118 Q-loop/lid; other site 491916014119 ABC transporter signature motif; other site 491916014120 Walker B; other site 491916014121 D-loop; other site 491916014122 H-loop/switch region; other site 491916014123 TOBE domain; Region: TOBE; pfam03459 491916014124 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916014125 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916014126 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916014127 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 491916014128 dimer interface [polypeptide binding]; other site 491916014129 conserved gate region; other site 491916014130 putative PBP binding loops; other site 491916014131 ABC-ATPase subunit interface; other site 491916014132 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916014133 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 491916014134 dimer interface [polypeptide binding]; other site 491916014135 conserved gate region; other site 491916014136 putative PBP binding loops; other site 491916014137 ABC-ATPase subunit interface; other site 491916014138 Predicted membrane protein [Function unknown]; Region: COG4541 491916014139 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 491916014140 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491916014141 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491916014142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916014143 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916014144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916014145 metal binding site [ion binding]; metal-binding site 491916014146 active site 491916014147 I-site; other site 491916014148 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 491916014149 Methyltransferase domain; Region: Methyltransf_25; pfam13649 491916014150 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916014151 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916014152 inhibitor site; inhibition site 491916014153 active site 491916014154 dimer interface [polypeptide binding]; other site 491916014155 catalytic residue [active] 491916014156 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916014157 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 491916014158 DNA-binding site [nucleotide binding]; DNA binding site 491916014159 FCD domain; Region: FCD; pfam07729 491916014160 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916014161 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916014162 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 491916014163 dimer interface [polypeptide binding]; other site 491916014164 conserved gate region; other site 491916014165 putative PBP binding loops; other site 491916014166 ABC-ATPase subunit interface; other site 491916014167 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916014168 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 491916014169 dimer interface [polypeptide binding]; other site 491916014170 conserved gate region; other site 491916014171 putative PBP binding loops; other site 491916014172 ABC-ATPase subunit interface; other site 491916014173 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491916014174 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 491916014175 substrate binding site [chemical binding]; other site 491916014176 ATP binding site [chemical binding]; other site 491916014177 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491916014178 transcriptional regulator; Provisional; Region: PRK10632 491916014179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916014180 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_10; cd08480 491916014181 putative effector binding pocket; other site 491916014182 putative dimerization interface [polypeptide binding]; other site 491916014183 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916014184 classical (c) SDRs; Region: SDR_c; cd05233 491916014185 NAD(P) binding site [chemical binding]; other site 491916014186 active site 491916014187 Uncharacterized conserved protein [Function unknown]; Region: COG1359 491916014188 hypothetical protein; Provisional; Region: PRK10621 491916014189 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491916014190 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 491916014191 CGNR zinc finger; Region: zf-CGNR; pfam11706 491916014192 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 491916014193 EamA-like transporter family; Region: EamA; pfam00892 491916014194 EamA-like transporter family; Region: EamA; pfam00892 491916014195 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 491916014196 active site 491916014197 DNA polymerase IV; Validated; Region: PRK02406 491916014198 DNA binding site [nucleotide binding] 491916014199 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 491916014200 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 491916014201 hypothetical protein; Validated; Region: PRK08238 491916014202 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 491916014203 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 491916014204 GtrA-like protein; Region: GtrA; pfam04138 491916014205 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 491916014206 FAD binding domain; Region: FAD_binding_4; pfam01565 491916014207 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 491916014208 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 491916014209 classical (c) SDRs; Region: SDR_c; cd05233 491916014210 NAD(P) binding site [chemical binding]; other site 491916014211 active site 491916014212 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916014213 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 491916014214 non-specific DNA binding site [nucleotide binding]; other site 491916014215 salt bridge; other site 491916014216 sequence-specific DNA binding site [nucleotide binding]; other site 491916014217 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 491916014218 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916014219 putative substrate translocation pore; other site 491916014220 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 491916014221 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 491916014222 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 491916014223 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 491916014224 Walker A/P-loop; other site 491916014225 ATP binding site [chemical binding]; other site 491916014226 Q-loop/lid; other site 491916014227 ABC transporter signature motif; other site 491916014228 Walker B; other site 491916014229 D-loop; other site 491916014230 H-loop/switch region; other site 491916014231 NIL domain; Region: NIL; pfam09383 491916014232 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 491916014233 dimer interface [polypeptide binding]; other site 491916014234 conserved gate region; other site 491916014235 ABC-ATPase subunit interface; other site 491916014236 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 491916014237 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 491916014238 active site 491916014239 non-prolyl cis peptide bond; other site 491916014240 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 491916014241 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 491916014242 active site 491916014243 substrate binding site [chemical binding]; other site 491916014244 coenzyme B12 binding site [chemical binding]; other site 491916014245 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 491916014246 B12 binding site [chemical binding]; other site 491916014247 cobalt ligand [ion binding]; other site 491916014248 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 491916014249 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491916014250 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916014251 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916014252 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916014253 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916014254 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916014255 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916014256 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491916014257 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491916014258 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 491916014259 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916014260 active site 491916014261 metal binding site [ion binding]; metal-binding site 491916014262 Cupin domain; Region: Cupin_2; pfam07883 491916014263 Helix-turn-helix domain; Region: HTH_18; pfam12833 491916014264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916014265 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916014266 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916014267 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916014268 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 491916014269 dimer interface [polypeptide binding]; other site 491916014270 conserved gate region; other site 491916014271 putative PBP binding loops; other site 491916014272 ABC-ATPase subunit interface; other site 491916014273 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916014274 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916014275 Walker A/P-loop; other site 491916014276 ATP binding site [chemical binding]; other site 491916014277 Q-loop/lid; other site 491916014278 ABC transporter signature motif; other site 491916014279 Walker B; other site 491916014280 D-loop; other site 491916014281 H-loop/switch region; other site 491916014282 TOBE domain; Region: TOBE_2; pfam08402 491916014283 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916014284 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916014285 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916014286 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 491916014287 active site 491916014288 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916014289 catalytic tetrad [active] 491916014290 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 491916014291 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 491916014292 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 491916014293 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 491916014294 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 491916014295 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916014296 Walker A/P-loop; other site 491916014297 ATP binding site [chemical binding]; other site 491916014298 ABC transporter signature motif; other site 491916014299 Walker B; other site 491916014300 D-loop; other site 491916014301 H-loop/switch region; other site 491916014302 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 491916014303 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916014304 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 491916014305 Walker A/P-loop; other site 491916014306 ATP binding site [chemical binding]; other site 491916014307 Q-loop/lid; other site 491916014308 ABC transporter signature motif; other site 491916014309 Walker B; other site 491916014310 D-loop; other site 491916014311 H-loop/switch region; other site 491916014312 Predicted transcriptional regulators [Transcription]; Region: COG1510 491916014313 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 491916014314 putative DNA binding site [nucleotide binding]; other site 491916014315 putative Zn2+ binding site [ion binding]; other site 491916014316 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 491916014317 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 491916014318 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 491916014319 putative ligand binding site [chemical binding]; other site 491916014320 putative NAD binding site [chemical binding]; other site 491916014321 catalytic site [active] 491916014322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 491916014323 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 491916014324 putative deacylase active site [active] 491916014325 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916014326 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916014327 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 491916014328 dimer interface [polypeptide binding]; other site 491916014329 conserved gate region; other site 491916014330 putative PBP binding loops; other site 491916014331 ABC-ATPase subunit interface; other site 491916014332 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916014333 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 491916014334 dimer interface [polypeptide binding]; other site 491916014335 conserved gate region; other site 491916014336 putative PBP binding loops; other site 491916014337 ABC-ATPase subunit interface; other site 491916014338 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916014339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916014340 Walker A/P-loop; other site 491916014341 ATP binding site [chemical binding]; other site 491916014342 Q-loop/lid; other site 491916014343 ABC transporter signature motif; other site 491916014344 Walker B; other site 491916014345 D-loop; other site 491916014346 H-loop/switch region; other site 491916014347 TOBE domain; Region: TOBE_2; pfam08402 491916014348 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 491916014349 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 491916014350 active site 491916014351 catalytic site [active] 491916014352 metal binding site [ion binding]; metal-binding site 491916014353 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916014354 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916014355 domain linker motif; other site 491916014356 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 491916014357 putative dimerization interface [polypeptide binding]; other site 491916014358 putative ligand binding site [chemical binding]; other site 491916014359 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 491916014360 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916014361 active site 491916014362 dimerization interface [polypeptide binding]; other site 491916014363 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 491916014364 active site 491916014365 catalytic site [active] 491916014366 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 491916014367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916014368 catalytic residue [active] 491916014369 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916014370 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916014371 Walker A/P-loop; other site 491916014372 ATP binding site [chemical binding]; other site 491916014373 Q-loop/lid; other site 491916014374 ABC transporter signature motif; other site 491916014375 Walker B; other site 491916014376 D-loop; other site 491916014377 H-loop/switch region; other site 491916014378 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916014379 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916014380 Walker A/P-loop; other site 491916014381 ATP binding site [chemical binding]; other site 491916014382 Q-loop/lid; other site 491916014383 ABC transporter signature motif; other site 491916014384 Walker B; other site 491916014385 D-loop; other site 491916014386 H-loop/switch region; other site 491916014387 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 491916014388 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 491916014389 dimer interface [polypeptide binding]; other site 491916014390 conserved gate region; other site 491916014391 putative PBP binding loops; other site 491916014392 ABC-ATPase subunit interface; other site 491916014393 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916014394 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 491916014395 dimer interface [polypeptide binding]; other site 491916014396 conserved gate region; other site 491916014397 putative PBP binding loops; other site 491916014398 ABC-ATPase subunit interface; other site 491916014399 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916014400 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_13; cd08517 491916014401 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916014402 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916014403 DNA binding site [nucleotide binding] 491916014404 domain linker motif; other site 491916014405 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 491916014406 ligand binding site [chemical binding]; other site 491916014407 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916014408 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916014409 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916014410 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916014411 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916014412 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916014413 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916014414 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 491916014415 dimer interface [polypeptide binding]; other site 491916014416 conserved gate region; other site 491916014417 putative PBP binding loops; other site 491916014418 ABC-ATPase subunit interface; other site 491916014419 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916014420 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 491916014421 dimer interface [polypeptide binding]; other site 491916014422 conserved gate region; other site 491916014423 putative PBP binding loops; other site 491916014424 ABC-ATPase subunit interface; other site 491916014425 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916014426 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916014427 Walker A/P-loop; other site 491916014428 ATP binding site [chemical binding]; other site 491916014429 Q-loop/lid; other site 491916014430 ABC transporter signature motif; other site 491916014431 Walker B; other site 491916014432 D-loop; other site 491916014433 H-loop/switch region; other site 491916014434 TOBE domain; Region: TOBE_2; pfam08402 491916014435 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916014436 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 491916014437 active site 491916014438 dimerization interface [polypeptide binding]; other site 491916014439 methionine sulfoxide reductase A; Provisional; Region: PRK14054 491916014440 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916014441 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 491916014442 TAP-like protein; Region: Abhydrolase_4; pfam08386 491916014443 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 491916014444 S-adenosylmethionine binding site [chemical binding]; other site 491916014445 cytosine deaminase; Validated; Region: PRK07572 491916014446 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 491916014447 active site 491916014448 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916014449 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 491916014450 TM-ABC transporter signature motif; other site 491916014451 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916014452 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 491916014453 TM-ABC transporter signature motif; other site 491916014454 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 491916014455 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916014456 Walker A/P-loop; other site 491916014457 ATP binding site [chemical binding]; other site 491916014458 Q-loop/lid; other site 491916014459 ABC transporter signature motif; other site 491916014460 Walker B; other site 491916014461 D-loop; other site 491916014462 H-loop/switch region; other site 491916014463 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916014464 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 491916014465 Amidase; Region: Amidase; cl11426 491916014466 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 491916014467 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 491916014468 putative ligand binding site [chemical binding]; other site 491916014469 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 491916014470 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491916014471 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491916014472 putative acyl-acceptor binding pocket; other site 491916014473 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 491916014474 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 491916014475 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 491916014476 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 491916014477 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 491916014478 HSP70 interaction site [polypeptide binding]; other site 491916014479 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 491916014480 substrate binding site [polypeptide binding]; other site 491916014481 dimer interface [polypeptide binding]; other site 491916014482 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 491916014483 Ligand Binding Site [chemical binding]; other site 491916014484 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 491916014485 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 491916014486 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 491916014487 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 491916014488 hypothetical protein; Provisional; Region: PRK02399 491916014489 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 491916014490 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916014491 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916014492 DNA-binding site [nucleotide binding]; DNA binding site 491916014493 FCD domain; Region: FCD; pfam07729 491916014494 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916014495 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916014496 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 491916014497 dimer interface [polypeptide binding]; other site 491916014498 conserved gate region; other site 491916014499 putative PBP binding loops; other site 491916014500 ABC-ATPase subunit interface; other site 491916014501 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916014502 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 491916014503 dimer interface [polypeptide binding]; other site 491916014504 conserved gate region; other site 491916014505 putative PBP binding loops; other site 491916014506 ABC-ATPase subunit interface; other site 491916014507 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916014508 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916014509 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491916014510 putative S-transferase; Provisional; Region: PRK11752 491916014511 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 491916014512 C-terminal domain interface [polypeptide binding]; other site 491916014513 GSH binding site (G-site) [chemical binding]; other site 491916014514 dimer interface [polypeptide binding]; other site 491916014515 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 491916014516 dimer interface [polypeptide binding]; other site 491916014517 N-terminal domain interface [polypeptide binding]; other site 491916014518 active site 491916014519 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916014520 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 491916014521 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 491916014522 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916014523 Walker A/P-loop; other site 491916014524 ATP binding site [chemical binding]; other site 491916014525 Q-loop/lid; other site 491916014526 ABC transporter signature motif; other site 491916014527 Walker B; other site 491916014528 D-loop; other site 491916014529 H-loop/switch region; other site 491916014530 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916014531 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916014532 Walker A/P-loop; other site 491916014533 ATP binding site [chemical binding]; other site 491916014534 Q-loop/lid; other site 491916014535 ABC transporter signature motif; other site 491916014536 Walker B; other site 491916014537 D-loop; other site 491916014538 H-loop/switch region; other site 491916014539 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 491916014540 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 491916014541 dimer interface [polypeptide binding]; other site 491916014542 conserved gate region; other site 491916014543 putative PBP binding loops; other site 491916014544 ABC-ATPase subunit interface; other site 491916014545 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916014546 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 491916014547 dimer interface [polypeptide binding]; other site 491916014548 conserved gate region; other site 491916014549 putative PBP binding loops; other site 491916014550 ABC-ATPase subunit interface; other site 491916014551 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 491916014552 Autoinducer binding domain; Region: Autoind_bind; pfam03472 491916014553 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916014554 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 491916014555 DNA binding residues [nucleotide binding] 491916014556 dimerization interface [polypeptide binding]; other site 491916014557 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 491916014558 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 491916014559 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 491916014560 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 491916014561 oligomeric interface; other site 491916014562 putative active site [active] 491916014563 homodimer interface [polypeptide binding]; other site 491916014564 P-loop containing region of AAA domain; Region: AAA_29; cl17516 491916014565 AAA domain; Region: AAA_27; pfam13514 491916014566 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 491916014567 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 491916014568 active site 491916014569 metal binding site [ion binding]; metal-binding site 491916014570 DNA binding site [nucleotide binding] 491916014571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 491916014572 SPFH domain / Band 7 family; Region: Band_7; pfam01145 491916014573 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 491916014574 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 491916014575 ThiC-associated domain; Region: ThiC-associated; pfam13667 491916014576 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 491916014577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491916014578 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 491916014579 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 491916014580 ThiS interaction site; other site 491916014581 putative active site [active] 491916014582 tetramer interface [polypeptide binding]; other site 491916014583 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 491916014584 thiamine phosphate binding site [chemical binding]; other site 491916014585 active site 491916014586 pyrophosphate binding site [ion binding]; other site 491916014587 yhc00064 491916014588 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 491916014589 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 491916014590 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 491916014591 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916014592 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916014593 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 491916014594 putative active site [active] 491916014595 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 491916014596 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916014597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916014598 Walker A/P-loop; other site 491916014599 ATP binding site [chemical binding]; other site 491916014600 Q-loop/lid; other site 491916014601 ABC transporter signature motif; other site 491916014602 Walker B; other site 491916014603 D-loop; other site 491916014604 H-loop/switch region; other site 491916014605 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 491916014606 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 491916014607 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 491916014608 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 491916014609 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 491916014610 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 491916014611 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 491916014612 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 491916014613 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 491916014614 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 491916014615 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 491916014616 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 491916014617 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 491916014618 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 491916014619 VCBS repeat; Region: VCBS_repeat; TIGR01965 491916014620 Cadherin repeat-like domain; Region: CA_like; cl15786 491916014621 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 491916014622 VCBS repeat; Region: VCBS_repeat; TIGR01965 491916014623 Cadherin repeat-like domain; Region: CA_like; cl15786 491916014624 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 491916014625 Ca2+ binding site [ion binding]; other site 491916014626 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 491916014627 VCBS repeat; Region: VCBS_repeat; TIGR01965 491916014628 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 491916014629 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 491916014630 SLBB domain; Region: SLBB; pfam10531 491916014631 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 491916014632 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 491916014633 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 491916014634 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 491916014635 inhibitor-cofactor binding pocket; inhibition site 491916014636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916014637 catalytic residue [active] 491916014638 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916014639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916014640 NAD(P) binding site [chemical binding]; other site 491916014641 active site 491916014642 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 491916014643 putative trimer interface [polypeptide binding]; other site 491916014644 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 491916014645 putative CoA binding site [chemical binding]; other site 491916014646 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 491916014647 trimer interface [polypeptide binding]; other site 491916014648 active site 491916014649 substrate binding site [chemical binding]; other site 491916014650 CoA binding site [chemical binding]; other site 491916014651 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 491916014652 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 491916014653 inhibitor-cofactor binding pocket; inhibition site 491916014654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916014655 catalytic residue [active] 491916014656 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916014657 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916014658 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916014659 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 491916014660 putative trimer interface [polypeptide binding]; other site 491916014661 putative active site [active] 491916014662 putative substrate binding site [chemical binding]; other site 491916014663 putative CoA binding site [chemical binding]; other site 491916014664 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491916014665 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 491916014666 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 491916014667 DNA binding residues [nucleotide binding] 491916014668 dimerization interface [polypeptide binding]; other site 491916014669 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491916014670 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 491916014671 active site 491916014672 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 491916014673 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 491916014674 Ligand binding site; other site 491916014675 metal-binding site 491916014676 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 491916014677 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916014678 NAD binding site [chemical binding]; other site 491916014679 putative substrate binding site 2 [chemical binding]; other site 491916014680 putative substrate binding site 1 [chemical binding]; other site 491916014681 active site 491916014682 Bacterial sugar transferase; Region: Bac_transf; pfam02397 491916014683 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 491916014684 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 491916014685 Right handed beta helix region; Region: Beta_helix; pfam13229 491916014686 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 491916014687 O-Antigen ligase; Region: Wzy_C; pfam04932 491916014688 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491916014689 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 491916014690 active site 491916014691 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 491916014692 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916014693 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916014694 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 491916014695 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 491916014696 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 491916014697 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 491916014698 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 491916014699 NADP-binding site; other site 491916014700 homotetramer interface [polypeptide binding]; other site 491916014701 substrate binding site [chemical binding]; other site 491916014702 homodimer interface [polypeptide binding]; other site 491916014703 active site 491916014704 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 491916014705 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 491916014706 putative molybdopterin cofactor binding site [chemical binding]; other site 491916014707 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 491916014708 putative molybdopterin cofactor binding site; other site 491916014709 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 491916014710 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 491916014711 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 491916014712 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 491916014713 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 491916014714 Cytochrome c; Region: Cytochrom_C; pfam00034 491916014715 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 491916014716 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 491916014717 D-pathway; other site 491916014718 Putative ubiquinol binding site [chemical binding]; other site 491916014719 Low-spin heme (heme b) binding site [chemical binding]; other site 491916014720 Putative water exit pathway; other site 491916014721 Binuclear center (heme o3/CuB) [ion binding]; other site 491916014722 K-pathway; other site 491916014723 Putative proton exit pathway; other site 491916014724 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 491916014725 Subunit I/III interface [polypeptide binding]; other site 491916014726 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 491916014727 Cytochrome c; Region: Cytochrom_C; pfam00034 491916014728 Cytochrome c; Region: Cytochrom_C; pfam00034 491916014729 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 491916014730 Cytochrome c; Region: Cytochrom_C; pfam00034 491916014731 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491916014732 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 491916014733 S-adenosylmethionine binding site [chemical binding]; other site 491916014734 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916014735 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 491916014736 NAD binding site [chemical binding]; other site 491916014737 putative substrate binding site 2 [chemical binding]; other site 491916014738 putative substrate binding site 1 [chemical binding]; other site 491916014739 active site 491916014740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 491916014741 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 491916014742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 491916014743 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 491916014744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 491916014745 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 491916014746 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 491916014747 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916014748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916014749 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916014750 NAD(P) binding site [chemical binding]; other site 491916014751 active site 491916014752 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916014753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916014754 NAD(P) binding site [chemical binding]; other site 491916014755 active site 491916014756 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491916014757 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 491916014758 putative NAD(P) binding site [chemical binding]; other site 491916014759 catalytic Zn binding site [ion binding]; other site 491916014760 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916014761 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916014762 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916014763 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 491916014764 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 491916014765 active site 491916014766 metal binding site [ion binding]; metal-binding site 491916014767 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 491916014768 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491916014769 NAD binding site [chemical binding]; other site 491916014770 catalytic Zn binding site [ion binding]; other site 491916014771 structural Zn binding site [ion binding]; other site 491916014772 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 491916014773 classical (c) SDRs; Region: SDR_c; cd05233 491916014774 NAD(P) binding site [chemical binding]; other site 491916014775 active site 491916014776 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491916014777 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 491916014778 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 491916014779 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 491916014780 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 491916014781 S-adenosylmethionine binding site [chemical binding]; other site 491916014782 Erythromycin esterase; Region: Erythro_esteras; pfam05139 491916014783 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 491916014784 thiamine pyrophosphate protein; Provisional; Region: PRK08273 491916014785 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 491916014786 PYR/PP interface [polypeptide binding]; other site 491916014787 dimer interface [polypeptide binding]; other site 491916014788 tetramer interface [polypeptide binding]; other site 491916014789 TPP binding site [chemical binding]; other site 491916014790 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491916014791 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 491916014792 TPP-binding site [chemical binding]; other site 491916014793 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916014794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916014795 DNA-binding site [nucleotide binding]; DNA binding site 491916014796 FCD domain; Region: FCD; pfam07729 491916014797 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 491916014798 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 491916014799 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 491916014800 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 491916014801 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916014802 Walker A/P-loop; other site 491916014803 ATP binding site [chemical binding]; other site 491916014804 Q-loop/lid; other site 491916014805 ABC transporter signature motif; other site 491916014806 Walker B; other site 491916014807 D-loop; other site 491916014808 H-loop/switch region; other site 491916014809 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491916014810 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 491916014811 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916014812 Walker A/P-loop; other site 491916014813 ATP binding site [chemical binding]; other site 491916014814 Q-loop/lid; other site 491916014815 ABC transporter signature motif; other site 491916014816 Walker B; other site 491916014817 D-loop; other site 491916014818 H-loop/switch region; other site 491916014819 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916014820 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916014821 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 491916014822 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 491916014823 dimer interface [polypeptide binding]; other site 491916014824 conserved gate region; other site 491916014825 putative PBP binding loops; other site 491916014826 ABC-ATPase subunit interface; other site 491916014827 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916014828 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 491916014829 dimer interface [polypeptide binding]; other site 491916014830 conserved gate region; other site 491916014831 putative PBP binding loops; other site 491916014832 ABC-ATPase subunit interface; other site 491916014833 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 491916014834 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 491916014835 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916014836 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916014837 inhibitor site; inhibition site 491916014838 active site 491916014839 dimer interface [polypeptide binding]; other site 491916014840 catalytic residue [active] 491916014841 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 491916014842 BNR repeat-like domain; Region: BNR_2; pfam13088 491916014843 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 491916014844 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 491916014845 putative active site [active] 491916014846 metal binding site [ion binding]; metal-binding site 491916014847 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 491916014848 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 491916014849 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 491916014850 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 491916014851 N- and C-terminal domain interface [polypeptide binding]; other site 491916014852 active site 491916014853 MgATP binding site [chemical binding]; other site 491916014854 catalytic site [active] 491916014855 metal binding site [ion binding]; metal-binding site 491916014856 glycerol binding site [chemical binding]; other site 491916014857 homotetramer interface [polypeptide binding]; other site 491916014858 homodimer interface [polypeptide binding]; other site 491916014859 FBP binding site [chemical binding]; other site 491916014860 protein IIAGlc interface [polypeptide binding]; other site 491916014861 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916014862 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 491916014863 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916014864 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 491916014865 dimer interface [polypeptide binding]; other site 491916014866 conserved gate region; other site 491916014867 putative PBP binding loops; other site 491916014868 ABC-ATPase subunit interface; other site 491916014869 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 491916014870 dimer interface [polypeptide binding]; other site 491916014871 conserved gate region; other site 491916014872 putative PBP binding loops; other site 491916014873 ABC-ATPase subunit interface; other site 491916014874 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916014875 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 491916014876 Walker A/P-loop; other site 491916014877 ATP binding site [chemical binding]; other site 491916014878 Q-loop/lid; other site 491916014879 ABC transporter signature motif; other site 491916014880 Walker B; other site 491916014881 D-loop; other site 491916014882 H-loop/switch region; other site 491916014883 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491916014884 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 491916014885 Walker A/P-loop; other site 491916014886 ATP binding site [chemical binding]; other site 491916014887 Q-loop/lid; other site 491916014888 ABC transporter signature motif; other site 491916014889 Walker B; other site 491916014890 D-loop; other site 491916014891 H-loop/switch region; other site 491916014892 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 491916014893 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491916014894 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 491916014895 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491916014896 EamA-like transporter family; Region: EamA; pfam00892 491916014897 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491916014898 EamA-like transporter family; Region: EamA; pfam00892 491916014899 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916014900 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916014901 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 491916014902 dimerization interface [polypeptide binding]; other site 491916014903 Protein of unknown function (DUF992); Region: DUF992; pfam06186 491916014904 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 491916014905 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916014906 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916014907 Walker A/P-loop; other site 491916014908 ATP binding site [chemical binding]; other site 491916014909 Q-loop/lid; other site 491916014910 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916014911 ABC transporter signature motif; other site 491916014912 Walker B; other site 491916014913 D-loop; other site 491916014914 ABC transporter; Region: ABC_tran_2; pfam12848 491916014915 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491916014916 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 491916014917 active site 491916014918 catalytic residues [active] 491916014919 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491916014920 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 491916014921 putative substrate translocation pore; other site 491916014922 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 491916014923 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 491916014924 E3 interaction surface; other site 491916014925 lipoyl attachment site [posttranslational modification]; other site 491916014926 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916014927 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916014928 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916014929 mannonate dehydratase; Provisional; Region: PRK03906 491916014930 mannonate dehydratase; Region: uxuA; TIGR00695 491916014931 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916014932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916014933 DNA-binding site [nucleotide binding]; DNA binding site 491916014934 FCD domain; Region: FCD; pfam07729 491916014935 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 491916014936 O-Antigen ligase; Region: Wzy_C; pfam04932 491916014937 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 491916014938 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 491916014939 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 491916014940 NAD(P) binding site [chemical binding]; other site 491916014941 homodimer interface [polypeptide binding]; other site 491916014942 substrate binding site [chemical binding]; other site 491916014943 active site 491916014944 Bacterial sugar transferase; Region: Bac_transf; pfam02397 491916014945 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 491916014946 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 491916014947 Predicted membrane protein [Function unknown]; Region: COG3766 491916014948 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 491916014949 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 491916014950 Ion channel; Region: Ion_trans_2; pfam07885 491916014951 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 491916014952 PspA/IM30 family; Region: PspA_IM30; pfam04012 491916014953 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 491916014954 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916014955 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916014956 Walker A/P-loop; other site 491916014957 ATP binding site [chemical binding]; other site 491916014958 Q-loop/lid; other site 491916014959 ABC transporter signature motif; other site 491916014960 Walker B; other site 491916014961 D-loop; other site 491916014962 H-loop/switch region; other site 491916014963 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 491916014964 dimer interface [polypeptide binding]; other site 491916014965 conserved gate region; other site 491916014966 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 491916014967 dimer interface [polypeptide binding]; other site 491916014968 conserved gate region; other site 491916014969 putative PBP binding loops; other site 491916014970 ABC-ATPase subunit interface; other site 491916014971 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916014972 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 491916014973 substrate binding pocket [chemical binding]; other site 491916014974 membrane-bound complex binding site; other site 491916014975 hinge residues; other site 491916014976 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916014977 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916014978 DNA-binding site [nucleotide binding]; DNA binding site 491916014979 FCD domain; Region: FCD; pfam07729 491916014980 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916014981 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916014982 Walker A/P-loop; other site 491916014983 ATP binding site [chemical binding]; other site 491916014984 Q-loop/lid; other site 491916014985 ABC transporter signature motif; other site 491916014986 Walker B; other site 491916014987 D-loop; other site 491916014988 H-loop/switch region; other site 491916014989 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 491916014990 dimer interface [polypeptide binding]; other site 491916014991 conserved gate region; other site 491916014992 putative PBP binding loops; other site 491916014993 ABC-ATPase subunit interface; other site 491916014994 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 491916014995 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 491916014996 ABC-ATPase subunit interface; other site 491916014997 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916014998 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 491916014999 substrate binding pocket [chemical binding]; other site 491916015000 membrane-bound complex binding site; other site 491916015001 hinge residues; other site 491916015002 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 491916015003 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916015004 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916015005 ypc00231 491916015006 ypc00232 491916015007 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916015008 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916015009 dimer interface [polypeptide binding]; other site 491916015010 putative CheW interface [polypeptide binding]; other site 491916015011 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 491916015012 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 491916015013 putative active site [active] 491916015014 Zn binding site [ion binding]; other site 491916015015 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 491916015016 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 491916015017 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 491916015018 active site 491916015019 ectoine utilization protein EutC; Validated; Region: PRK08291 491916015020 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 491916015021 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 491916015022 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 491916015023 tetramer interface [polypeptide binding]; other site 491916015024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916015025 catalytic residue [active] 491916015026 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491916015027 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 491916015028 dimer interface [polypeptide binding]; other site 491916015029 conserved gate region; other site 491916015030 putative PBP binding loops; other site 491916015031 ABC-ATPase subunit interface; other site 491916015032 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916015033 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 491916015034 dimer interface [polypeptide binding]; other site 491916015035 conserved gate region; other site 491916015036 putative PBP binding loops; other site 491916015037 ABC-ATPase subunit interface; other site 491916015038 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 491916015039 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 491916015040 substrate binding pocket [chemical binding]; other site 491916015041 membrane-bound complex binding site; other site 491916015042 hinge residues; other site 491916015043 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 491916015044 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916015045 Walker A/P-loop; other site 491916015046 ATP binding site [chemical binding]; other site 491916015047 Q-loop/lid; other site 491916015048 ABC transporter signature motif; other site 491916015049 Walker B; other site 491916015050 D-loop; other site 491916015051 H-loop/switch region; other site 491916015052 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 491916015053 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916015054 DNA-binding site [nucleotide binding]; DNA binding site 491916015055 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 491916015056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916015057 homodimer interface [polypeptide binding]; other site 491916015058 catalytic residue [active] 491916015059 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916015060 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 491916015061 putative DNA binding site [nucleotide binding]; other site 491916015062 putative Zn2+ binding site [ion binding]; other site 491916015063 AsnC family; Region: AsnC_trans_reg; pfam01037 491916015064 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916015065 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916015066 Walker A/P-loop; other site 491916015067 ATP binding site [chemical binding]; other site 491916015068 Q-loop/lid; other site 491916015069 ABC transporter signature motif; other site 491916015070 Walker B; other site 491916015071 D-loop; other site 491916015072 H-loop/switch region; other site 491916015073 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 491916015074 dimer interface [polypeptide binding]; other site 491916015075 conserved gate region; other site 491916015076 putative PBP binding loops; other site 491916015077 ABC-ATPase subunit interface; other site 491916015078 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916015079 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 491916015080 substrate binding pocket [chemical binding]; other site 491916015081 membrane-bound complex binding site; other site 491916015082 hinge residues; other site 491916015083 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 491916015084 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 491916015085 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 491916015086 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 491916015087 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916015088 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 491916015089 NAD(P) binding site [chemical binding]; other site 491916015090 catalytic residues [active] 491916015091 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 491916015092 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; cl00447 491916015093 nudix motif; other site 491916015094 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 491916015095 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 491916015096 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 491916015097 Amino acid synthesis; Region: AA_synth; pfam06684 491916015098 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916015099 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 491916015100 putative DNA binding site [nucleotide binding]; other site 491916015101 putative Zn2+ binding site [ion binding]; other site 491916015102 AsnC family; Region: AsnC_trans_reg; pfam01037 491916015103 succinic semialdehyde dehydrogenase; Region: PLN02278 491916015104 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 491916015105 tetramerization interface [polypeptide binding]; other site 491916015106 NAD(P) binding site [chemical binding]; other site 491916015107 catalytic residues [active] 491916015108 hypothetical protein; Provisional; Region: PRK07482 491916015109 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 491916015110 inhibitor-cofactor binding pocket; inhibition site 491916015111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916015112 catalytic residue [active] 491916015113 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 491916015114 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 491916015115 putative NAD(P) binding site [chemical binding]; other site 491916015116 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 491916015117 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916015118 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916015119 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916015120 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 491916015121 conserved cys residue [active] 491916015122 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916015123 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916015124 Walker A/P-loop; other site 491916015125 ATP binding site [chemical binding]; other site 491916015126 Q-loop/lid; other site 491916015127 ABC transporter signature motif; other site 491916015128 Walker B; other site 491916015129 D-loop; other site 491916015130 H-loop/switch region; other site 491916015131 TOBE domain; Region: TOBE_2; pfam08402 491916015132 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916015133 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 491916015134 dimer interface [polypeptide binding]; other site 491916015135 conserved gate region; other site 491916015136 putative PBP binding loops; other site 491916015137 ABC-ATPase subunit interface; other site 491916015138 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 491916015139 dimer interface [polypeptide binding]; other site 491916015140 conserved gate region; other site 491916015141 putative PBP binding loops; other site 491916015142 ABC-ATPase subunit interface; other site 491916015143 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916015144 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916015145 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916015146 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916015147 DNA binding site [nucleotide binding] 491916015148 domain linker motif; other site 491916015149 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 491916015150 ligand binding site [chemical binding]; other site 491916015151 replication initiation protein RepC; Provisional; Region: PRK13824 491916015152 Helix-turn-helix domain; Region: HTH_36; pfam13730 491916015153 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 491916015154 putative DNA binding site [nucleotide binding]; other site 491916015155 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 491916015156 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 491916015157 ParB-like nuclease domain; Region: ParBc; pfam02195 491916015158 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 491916015159 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 491916015160 P-loop; other site 491916015161 Magnesium ion binding site [ion binding]; other site 491916015162 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 491916015163 Magnesium ion binding site [ion binding]; other site 491916015164 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 491916015165 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 491916015166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916015167 NADH(P)-binding; Region: NAD_binding_10; pfam13460 491916015168 NAD(P) binding site [chemical binding]; other site 491916015169 active site 491916015170 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 491916015171 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916015172 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 491916015173 putative active site [active] 491916015174 heme pocket [chemical binding]; other site 491916015175 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 491916015176 putative active site [active] 491916015177 heme pocket [chemical binding]; other site 491916015178 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 491916015179 PAS fold; Region: PAS_3; pfam08447 491916015180 putative active site [active] 491916015181 heme pocket [chemical binding]; other site 491916015182 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 491916015183 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916015184 putative active site [active] 491916015185 heme pocket [chemical binding]; other site 491916015186 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 491916015187 putative active site [active] 491916015188 heme pocket [chemical binding]; other site 491916015189 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916015190 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 491916015191 dimer interface [polypeptide binding]; other site 491916015192 phosphorylation site [posttranslational modification] 491916015193 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 491916015194 ATP binding site [chemical binding]; other site 491916015195 Mg2+ binding site [ion binding]; other site 491916015196 G-X-G motif; other site 491916015197 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 491916015198 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 491916015199 active site 491916015200 phosphorylation site [posttranslational modification] 491916015201 intermolecular recognition site; other site 491916015202 dimerization interface [polypeptide binding]; other site 491916015203 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 491916015204 DNA binding residues [nucleotide binding] 491916015205 dimerization interface [polypeptide binding]; other site 491916015206 Response regulator receiver domain; Region: Response_reg; pfam00072 491916015207 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 491916015208 active site 491916015209 phosphorylation site [posttranslational modification] 491916015210 intermolecular recognition site; other site 491916015211 dimerization interface [polypeptide binding]; other site 491916015212 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 491916015213 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 491916015214 active site 491916015215 phosphorylation site [posttranslational modification] 491916015216 intermolecular recognition site; other site 491916015217 dimerization interface [polypeptide binding]; other site 491916015218 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 491916015219 DNA binding residues [nucleotide binding] 491916015220 dimerization interface [polypeptide binding]; other site 491916015221 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 491916015222 dimerization interface [polypeptide binding]; other site 491916015223 putative DNA binding site [nucleotide binding]; other site 491916015224 putative Zn2+ binding site [ion binding]; other site 491916015225 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 491916015226 putative FMN binding site [chemical binding]; other site 491916015227 Predicted flavoprotein [General function prediction only]; Region: COG0431 491916015228 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916015229 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 491916015230 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 491916015231 active site pocket [active] 491916015232 galactonate dehydratase; Provisional; Region: PRK14017 491916015233 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 491916015234 active site pocket [active] 491916015235 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 491916015236 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916015237 Walker A/P-loop; other site 491916015238 ATP binding site [chemical binding]; other site 491916015239 Q-loop/lid; other site 491916015240 ABC transporter signature motif; other site 491916015241 Walker B; other site 491916015242 D-loop; other site 491916015243 H-loop/switch region; other site 491916015244 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916015245 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916015246 Walker A/P-loop; other site 491916015247 ATP binding site [chemical binding]; other site 491916015248 Q-loop/lid; other site 491916015249 ABC transporter signature motif; other site 491916015250 Walker B; other site 491916015251 D-loop; other site 491916015252 H-loop/switch region; other site 491916015253 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916015254 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916015255 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 491916015256 dimer interface [polypeptide binding]; other site 491916015257 conserved gate region; other site 491916015258 putative PBP binding loops; other site 491916015259 ABC-ATPase subunit interface; other site 491916015260 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916015261 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 491916015262 dimer interface [polypeptide binding]; other site 491916015263 conserved gate region; other site 491916015264 putative PBP binding loops; other site 491916015265 ABC-ATPase subunit interface; other site 491916015266 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916015267 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 491916015268 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916015269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916015270 DNA-binding site [nucleotide binding]; DNA binding site 491916015271 FCD domain; Region: FCD; pfam07729 491916015272 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916015273 extended (e) SDRs; Region: SDR_e; cd08946 491916015274 NAD(P) binding site [chemical binding]; other site 491916015275 active site 491916015276 substrate binding site [chemical binding]; other site 491916015277 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 491916015278 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916015279 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916015280 inhibitor site; inhibition site 491916015281 active site 491916015282 dimer interface [polypeptide binding]; other site 491916015283 catalytic residue [active] 491916015284 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 491916015285 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 491916015286 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916015287 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 491916015288 dimer interface [polypeptide binding]; other site 491916015289 conserved gate region; other site 491916015290 putative PBP binding loops; other site 491916015291 ABC-ATPase subunit interface; other site 491916015292 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 491916015293 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 491916015294 dimer interface [polypeptide binding]; other site 491916015295 conserved gate region; other site 491916015296 putative PBP binding loops; other site 491916015297 ABC-ATPase subunit interface; other site 491916015298 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916015299 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916015300 Walker A/P-loop; other site 491916015301 ATP binding site [chemical binding]; other site 491916015302 Q-loop/lid; other site 491916015303 ABC transporter signature motif; other site 491916015304 Walker B; other site 491916015305 D-loop; other site 491916015306 H-loop/switch region; other site 491916015307 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916015308 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916015309 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916015310 Walker A/P-loop; other site 491916015311 ATP binding site [chemical binding]; other site 491916015312 Q-loop/lid; other site 491916015313 ABC transporter signature motif; other site 491916015314 Walker B; other site 491916015315 D-loop; other site 491916015316 H-loop/switch region; other site 491916015317 EamA-like transporter family; Region: EamA; pfam00892 491916015318 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491916015319 Protein of unknown function (DUF763); Region: DUF763; pfam05559 491916015320 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 491916015321 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 491916015322 putative active site [active] 491916015323 catalytic site [active] 491916015324 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 491916015325 putative active site [active] 491916015326 catalytic site [active] 491916015327 Predicted integral membrane protein [Function unknown]; Region: COG0392 491916015328 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 491916015329 putative catalytic site [active] 491916015330 putative metal binding site [ion binding]; other site 491916015331 putative phosphate binding site [ion binding]; other site 491916015332 HAMP domain; Region: HAMP; pfam00672 491916015333 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916015334 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916015335 dimer interface [polypeptide binding]; other site 491916015336 putative CheW interface [polypeptide binding]; other site 491916015337 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916015338 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916015339 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916015340 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 491916015341 dimer interface [polypeptide binding]; other site 491916015342 conserved gate region; other site 491916015343 putative PBP binding loops; other site 491916015344 ABC-ATPase subunit interface; other site 491916015345 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916015346 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916015347 Walker A/P-loop; other site 491916015348 ATP binding site [chemical binding]; other site 491916015349 Q-loop/lid; other site 491916015350 ABC transporter signature motif; other site 491916015351 Walker B; other site 491916015352 D-loop; other site 491916015353 H-loop/switch region; other site 491916015354 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916015355 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 491916015356 substrate binding pocket [chemical binding]; other site 491916015357 membrane-bound complex binding site; other site 491916015358 hinge residues; other site 491916015359 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916015360 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916015361 DNA binding site [nucleotide binding] 491916015362 domain linker motif; other site 491916015363 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 491916015364 dimerization interface [polypeptide binding]; other site 491916015365 ligand binding site [chemical binding]; other site 491916015366 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 491916015367 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 491916015368 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 491916015369 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 491916015370 catalytic site [active] 491916015371 active site 491916015372 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 491916015373 Response regulator receiver domain; Region: Response_reg; pfam00072 491916015374 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 491916015375 active site 491916015376 phosphorylation site [posttranslational modification] 491916015377 intermolecular recognition site; other site 491916015378 dimerization interface [polypeptide binding]; other site 491916015379 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 491916015380 dimer interface [polypeptide binding]; other site 491916015381 phosphorylation site [posttranslational modification] 491916015382 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 491916015383 ATP binding site [chemical binding]; other site 491916015384 Mg2+ binding site [ion binding]; other site 491916015385 G-X-G motif; other site 491916015386 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916015387 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 491916015388 active site 491916015389 phosphorylation site [posttranslational modification] 491916015390 intermolecular recognition site; other site 491916015391 dimerization interface [polypeptide binding]; other site 491916015392 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916015393 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 491916015394 dimerization interface [polypeptide binding]; other site 491916015395 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 491916015396 dimerization interface [polypeptide binding]; other site 491916015397 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 491916015398 dimerization interface [polypeptide binding]; other site 491916015399 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 491916015400 dimerization interface [polypeptide binding]; other site 491916015401 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916015402 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 491916015403 dimerization interface [polypeptide binding]; other site 491916015404 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 491916015405 dimerization interface [polypeptide binding]; other site 491916015406 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 491916015407 dimerization interface [polypeptide binding]; other site 491916015408 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916015409 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 491916015410 dimerization interface [polypeptide binding]; other site 491916015411 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 491916015412 dimerization interface [polypeptide binding]; other site 491916015413 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 491916015414 dimerization interface [polypeptide binding]; other site 491916015415 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 491916015416 dimerization interface [polypeptide binding]; other site 491916015417 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 491916015418 GAF domain; Region: GAF; pfam01590 491916015419 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 491916015420 dimer interface [polypeptide binding]; other site 491916015421 phosphorylation site [posttranslational modification] 491916015422 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 491916015423 ATP binding site [chemical binding]; other site 491916015424 Mg2+ binding site [ion binding]; other site 491916015425 G-X-G motif; other site 491916015426 Response regulator receiver domain; Region: Response_reg; pfam00072 491916015427 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 491916015428 active site 491916015429 phosphorylation site [posttranslational modification] 491916015430 intermolecular recognition site; other site 491916015431 dimerization interface [polypeptide binding]; other site 491916015432 Response regulator receiver domain; Region: Response_reg; pfam00072 491916015433 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 491916015434 active site 491916015435 phosphorylation site [posttranslational modification] 491916015436 intermolecular recognition site; other site 491916015437 dimerization interface [polypeptide binding]; other site 491916015438 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916015439 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 491916015440 active site 491916015441 phosphorylation site [posttranslational modification] 491916015442 intermolecular recognition site; other site 491916015443 dimerization interface [polypeptide binding]; other site 491916015444 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916015445 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 491916015446 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 491916015447 putative ligand binding residues [chemical binding]; other site 491916015448 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491916015449 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 491916015450 ABC-ATPase subunit interface; other site 491916015451 dimer interface [polypeptide binding]; other site 491916015452 putative PBP binding regions; other site 491916015453 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 491916015454 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491916015455 Walker A/P-loop; other site 491916015456 ATP binding site [chemical binding]; other site 491916015457 Q-loop/lid; other site 491916015458 ABC transporter signature motif; other site 491916015459 Walker B; other site 491916015460 D-loop; other site 491916015461 H-loop/switch region; other site 491916015462 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916015463 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 491916015464 putative DNA binding site [nucleotide binding]; other site 491916015465 putative Zn2+ binding site [ion binding]; other site 491916015466 AsnC family; Region: AsnC_trans_reg; pfam01037 491916015467 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 491916015468 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 491916015469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916015470 homodimer interface [polypeptide binding]; other site 491916015471 catalytic residue [active] 491916015472 hypothetical protein; Provisional; Region: PRK08266 491916015473 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491916015474 PYR/PP interface [polypeptide binding]; other site 491916015475 dimer interface [polypeptide binding]; other site 491916015476 TPP binding site [chemical binding]; other site 491916015477 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491916015478 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 491916015479 TPP-binding site [chemical binding]; other site 491916015480 glycogen branching enzyme; Provisional; Region: PRK05402 491916015481 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 491916015482 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 491916015483 active site 491916015484 catalytic site [active] 491916015485 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 491916015486 trehalose synthase; Region: treS_nterm; TIGR02456 491916015487 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 491916015488 active site 491916015489 catalytic site [active] 491916015490 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 491916015491 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 491916015492 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 491916015493 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 491916015494 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 491916015495 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 491916015496 active site 491916015497 homodimer interface [polypeptide binding]; other site 491916015498 catalytic site [active] 491916015499 acceptor binding site [chemical binding]; other site 491916015500 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491916015501 Phosphotransferase enzyme family; Region: APH; pfam01636 491916015502 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 491916015503 active site 491916015504 substrate binding site [chemical binding]; other site 491916015505 ATP binding site [chemical binding]; other site 491916015506 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 491916015507 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 491916015508 oligomer interface [polypeptide binding]; other site 491916015509 metal binding site [ion binding]; metal-binding site 491916015510 metal binding site [ion binding]; metal-binding site 491916015511 putative Cl binding site [ion binding]; other site 491916015512 basic sphincter; other site 491916015513 hydrophobic gate; other site 491916015514 periplasmic entrance; other site 491916015515 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 491916015516 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 491916015517 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 491916015518 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916015519 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916015520 dimer interface [polypeptide binding]; other site 491916015521 putative CheW interface [polypeptide binding]; other site 491916015522 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 491916015523 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 491916015524 Na binding site [ion binding]; other site 491916015525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 491916015526 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491916015527 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916015528 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916015529 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916015530 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916015531 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 491916015532 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916015533 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916015534 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916015535 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916015536 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916015537 DNA binding site [nucleotide binding] 491916015538 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 491916015539 ligand binding site [chemical binding]; other site 491916015540 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916015541 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916015542 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491916015543 MarR family; Region: MarR_2; cl17246 491916015544 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916015545 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491916015546 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916015547 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 491916015548 dimer interface [polypeptide binding]; other site 491916015549 conserved gate region; other site 491916015550 putative PBP binding loops; other site 491916015551 ABC-ATPase subunit interface; other site 491916015552 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 491916015553 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 491916015554 ABC-ATPase subunit interface; other site 491916015555 putative PBP binding loops; other site 491916015556 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916015557 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916015558 Walker A/P-loop; other site 491916015559 ATP binding site [chemical binding]; other site 491916015560 Q-loop/lid; other site 491916015561 ABC transporter signature motif; other site 491916015562 Walker B; other site 491916015563 D-loop; other site 491916015564 H-loop/switch region; other site 491916015565 TOBE domain; Region: TOBE_2; pfam08402 491916015566 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 491916015567 Right handed beta helix region; Region: Beta_helix; pfam13229 491916015568 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 491916015569 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916015570 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916015571 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 491916015572 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916015573 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916015574 dimer interface [polypeptide binding]; other site 491916015575 putative CheW interface [polypeptide binding]; other site 491916015576 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 491916015577 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491916015578 putative ligand binding site [chemical binding]; other site 491916015579 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916015580 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 491916015581 dimer interface [polypeptide binding]; other site 491916015582 conserved gate region; other site 491916015583 putative PBP binding loops; other site 491916015584 ABC-ATPase subunit interface; other site 491916015585 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916015586 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 491916015587 dimer interface [polypeptide binding]; other site 491916015588 conserved gate region; other site 491916015589 putative PBP binding loops; other site 491916015590 ABC-ATPase subunit interface; other site 491916015591 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916015592 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916015593 Alpha-L-fucosidase; Region: Alpha_L_fucos; pfam01120 491916015594 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 491916015595 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916015596 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916015597 DNA binding site [nucleotide binding] 491916015598 domain linker motif; other site 491916015599 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 491916015600 dimerization interface [polypeptide binding]; other site 491916015601 ligand binding site [chemical binding]; other site 491916015602 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 491916015603 Predicted transcriptional regulator [Transcription]; Region: COG3905 491916015604 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916015605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916015606 DNA-binding site [nucleotide binding]; DNA binding site 491916015607 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 491916015608 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 491916015609 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 491916015610 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491916015611 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491916015612 Walker A/P-loop; other site 491916015613 ATP binding site [chemical binding]; other site 491916015614 Q-loop/lid; other site 491916015615 ABC transporter signature motif; other site 491916015616 Walker B; other site 491916015617 D-loop; other site 491916015618 H-loop/switch region; other site 491916015619 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491916015620 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 491916015621 dimer interface [polypeptide binding]; other site 491916015622 conserved gate region; other site 491916015623 putative PBP binding loops; other site 491916015624 ABC-ATPase subunit interface; other site 491916015625 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 491916015626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916015627 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 491916015628 dimer interface [polypeptide binding]; other site 491916015629 phosphorylation site [posttranslational modification] 491916015630 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 491916015631 ATP binding site [chemical binding]; other site 491916015632 Mg2+ binding site [ion binding]; other site 491916015633 G-X-G motif; other site 491916015634 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 491916015635 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 491916015636 active site 491916015637 phosphorylation site [posttranslational modification] 491916015638 intermolecular recognition site; other site 491916015639 dimerization interface [polypeptide binding]; other site 491916015640 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 491916015641 DNA binding site [nucleotide binding] 491916015642 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 491916015643 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 491916015644 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 491916015645 dimer interface [polypeptide binding]; other site 491916015646 conserved gate region; other site 491916015647 putative PBP binding loops; other site 491916015648 ABC-ATPase subunit interface; other site 491916015649 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916015650 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 491916015651 dimer interface [polypeptide binding]; other site 491916015652 conserved gate region; other site 491916015653 putative PBP binding loops; other site 491916015654 ABC-ATPase subunit interface; other site 491916015655 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 491916015656 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916015657 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916015658 Walker A/P-loop; other site 491916015659 ATP binding site [chemical binding]; other site 491916015660 Q-loop/lid; other site 491916015661 ABC transporter signature motif; other site 491916015662 Walker B; other site 491916015663 D-loop; other site 491916015664 H-loop/switch region; other site 491916015665 TOBE domain; Region: TOBE; pfam03459 491916015666 Protein of unknown function, DUF624; Region: DUF624; cl02369 491916015667 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916015668 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916015669 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 491916015670 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 491916015671 catalytic core [active] 491916015672 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 491916015673 active site 491916015674 phosphorylation site [posttranslational modification] 491916015675 intermolecular recognition site; other site 491916015676 dimerization interface [polypeptide binding]; other site 491916015677 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; cl02459 491916015678 PAS fold; Region: PAS_7; pfam12860 491916015679 PAS fold; Region: PAS_7; pfam12860 491916015680 PAS domain S-box; Region: sensory_box; TIGR00229 491916015681 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 491916015682 putative active site [active] 491916015683 heme pocket [chemical binding]; other site 491916015684 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 491916015685 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 491916015686 dimer interface [polypeptide binding]; other site 491916015687 phosphorylation site [posttranslational modification] 491916015688 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 491916015689 ATP binding site [chemical binding]; other site 491916015690 Mg2+ binding site [ion binding]; other site 491916015691 G-X-G motif; other site 491916015692 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 491916015693 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916015694 HD domain; Region: HD_4; pfam13328 491916015695 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 491916015696 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 491916015697 dimerization interface [polypeptide binding]; other site 491916015698 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 491916015699 oligomerisation interface [polypeptide binding]; other site 491916015700 mobile loop; other site 491916015701 roof hairpin; other site 491916015702 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 491916015703 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 491916015704 ring oligomerisation interface [polypeptide binding]; other site 491916015705 ATP/Mg binding site [chemical binding]; other site 491916015706 stacking interactions; other site 491916015707 hinge regions; other site 491916015708 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 491916015709 FAD binding domain; Region: FAD_binding_4; pfam01565 491916015710 Berberine and berberine like; Region: BBE; pfam08031 491916015711 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 491916015712 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 491916015713 HPP family; Region: HPP; pfam04982 491916015714 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 491916015715 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 491916015716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916015717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916015718 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 491916015719 dimerization interface [polypeptide binding]; other site 491916015720 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 491916015721 acetylornithine deacetylase; Provisional; Region: PRK07522 491916015722 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 491916015723 metal binding site [ion binding]; metal-binding site 491916015724 putative dimer interface [polypeptide binding]; other site 491916015725 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 491916015726 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 491916015727 putative ligand binding site [chemical binding]; other site 491916015728 NAD binding site [chemical binding]; other site 491916015729 dimerization interface [polypeptide binding]; other site 491916015730 catalytic site [active] 491916015731 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 491916015732 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 491916015733 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916015734 NAD(P) binding site [chemical binding]; other site 491916015735 catalytic residues [active] 491916015736 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 491916015737 tartrate dehydrogenase; Region: TTC; TIGR02089 491916015738 succinic semialdehyde dehydrogenase; Region: PLN02278 491916015739 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 491916015740 tetramerization interface [polypeptide binding]; other site 491916015741 NAD(P) binding site [chemical binding]; other site 491916015742 catalytic residues [active] 491916015743 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916015744 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491916015745 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 491916015746 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 491916015747 putative aldolase; Validated; Region: PRK08130 491916015748 intersubunit interface [polypeptide binding]; other site 491916015749 active site 491916015750 Zn2+ binding site [ion binding]; other site 491916015751 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916015752 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 491916015753 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 491916015754 putative dimerization interface [polypeptide binding]; other site 491916015755 putative ligand binding site [chemical binding]; other site 491916015756 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 491916015757 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 491916015758 putative substrate translocation pore; other site 491916015759 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 491916015760 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491916015761 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 491916015762 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 491916015763 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 491916015764 hypothetical protein; Provisional; Region: PRK05965 491916015765 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 491916015766 inhibitor-cofactor binding pocket; inhibition site 491916015767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916015768 catalytic residue [active] 491916015769 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 491916015770 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 491916015771 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916015772 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 491916015773 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916015774 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 491916015775 dimer interface [polypeptide binding]; other site 491916015776 conserved gate region; other site 491916015777 putative PBP binding loops; other site 491916015778 ABC-ATPase subunit interface; other site 491916015779 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916015780 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 491916015781 dimer interface [polypeptide binding]; other site 491916015782 conserved gate region; other site 491916015783 ABC-ATPase subunit interface; other site 491916015784 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 491916015785 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916015786 Walker A/P-loop; other site 491916015787 ATP binding site [chemical binding]; other site 491916015788 Q-loop/lid; other site 491916015789 ABC transporter signature motif; other site 491916015790 Walker B; other site 491916015791 D-loop; other site 491916015792 H-loop/switch region; other site 491916015793 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916015794 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916015795 Walker A/P-loop; other site 491916015796 ATP binding site [chemical binding]; other site 491916015797 Q-loop/lid; other site 491916015798 ABC transporter signature motif; other site 491916015799 Walker B; other site 491916015800 D-loop; other site 491916015801 H-loop/switch region; other site 491916015802 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916015803 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916015804 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 491916015805 putative DNA binding site [nucleotide binding]; other site 491916015806 putative Zn2+ binding site [ion binding]; other site 491916015807 AsnC family; Region: AsnC_trans_reg; pfam01037 491916015808 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916015809 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491916015810 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 491916015811 dimerization interface [polypeptide binding]; other site 491916015812 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916015813 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916015814 dimer interface [polypeptide binding]; other site 491916015815 putative CheW interface [polypeptide binding]; other site 491916015816 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 491916015817 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 491916015818 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 491916015819 Glutamate binding site [chemical binding]; other site 491916015820 NAD binding site [chemical binding]; other site 491916015821 catalytic residues [active] 491916015822 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 491916015823 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916015824 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 491916015825 putative DNA binding site [nucleotide binding]; other site 491916015826 dimerization interface [polypeptide binding]; other site 491916015827 putative Zn2+ binding site [ion binding]; other site 491916015828 AsnC family; Region: AsnC_trans_reg; pfam01037 491916015829 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 491916015830 putative trimer interface [polypeptide binding]; other site 491916015831 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 491916015832 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 491916015833 trimer interface [polypeptide binding]; other site 491916015834 active site 491916015835 substrate binding site [chemical binding]; other site 491916015836 putative CoA binding site [chemical binding]; other site 491916015837 CoA binding site [chemical binding]; other site 491916015838 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916015839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916015840 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 491916015841 dimerization interface [polypeptide binding]; other site 491916015842 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 491916015843 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 491916015844 [2Fe-2S] cluster binding site [ion binding]; other site 491916015845 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 491916015846 putative alpha subunit interface [polypeptide binding]; other site 491916015847 putative active site [active] 491916015848 putative substrate binding site [chemical binding]; other site 491916015849 Fe binding site [ion binding]; other site 491916015850 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 491916015851 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 491916015852 FAD binding pocket [chemical binding]; other site 491916015853 FAD binding motif [chemical binding]; other site 491916015854 phosphate binding motif [ion binding]; other site 491916015855 beta-alpha-beta structure motif; other site 491916015856 NAD binding pocket [chemical binding]; other site 491916015857 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 491916015858 catalytic loop [active] 491916015859 iron binding site [ion binding]; other site 491916015860 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 491916015861 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 491916015862 active site 491916015863 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 491916015864 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 491916015865 conserved cys residue [active] 491916015866 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916015867 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 491916015868 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 491916015869 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 491916015870 dimer interface [polypeptide binding]; other site 491916015871 conserved gate region; other site 491916015872 ABC-ATPase subunit interface; other site 491916015873 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 491916015874 dimer interface [polypeptide binding]; other site 491916015875 conserved gate region; other site 491916015876 putative PBP binding loops; other site 491916015877 ABC-ATPase subunit interface; other site 491916015878 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 491916015879 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 491916015880 Walker A/P-loop; other site 491916015881 ATP binding site [chemical binding]; other site 491916015882 Q-loop/lid; other site 491916015883 ABC transporter signature motif; other site 491916015884 Walker B; other site 491916015885 D-loop; other site 491916015886 H-loop/switch region; other site 491916015887 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 491916015888 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 491916015889 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491916015890 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916015891 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916015892 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 491916015893 NAD(P) binding site [chemical binding]; other site 491916015894 catalytic residues [active] 491916015895 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916015896 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916015897 inhibitor site; inhibition site 491916015898 active site 491916015899 dimer interface [polypeptide binding]; other site 491916015900 catalytic residue [active] 491916015901 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916015902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916015903 DNA-binding site [nucleotide binding]; DNA binding site 491916015904 FCD domain; Region: FCD; pfam07729 491916015905 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 491916015906 S-formylglutathione hydrolase; Region: PLN02442 491916015907 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 491916015908 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 491916015909 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 491916015910 substrate binding site [chemical binding]; other site 491916015911 catalytic Zn binding site [ion binding]; other site 491916015912 NAD binding site [chemical binding]; other site 491916015913 structural Zn binding site [ion binding]; other site 491916015914 dimer interface [polypeptide binding]; other site 491916015915 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 491916015916 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 491916015917 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 491916015918 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 491916015919 Ligand binding site [chemical binding]; other site 491916015920 Electron transfer flavoprotein domain; Region: ETF; pfam01012 491916015921 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 491916015922 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 491916015923 putative active site [active] 491916015924 putative FMN binding site [chemical binding]; other site 491916015925 putative substrate binding site [chemical binding]; other site 491916015926 putative catalytic residue [active] 491916015927 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916015928 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916015929 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916015930 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 491916015931 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 491916015932 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 491916015933 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 491916015934 dimer interface [polypeptide binding]; other site 491916015935 conserved gate region; other site 491916015936 putative PBP binding loops; other site 491916015937 ABC-ATPase subunit interface; other site 491916015938 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 491916015939 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 491916015940 Walker A/P-loop; other site 491916015941 ATP binding site [chemical binding]; other site 491916015942 Q-loop/lid; other site 491916015943 ABC transporter signature motif; other site 491916015944 Walker B; other site 491916015945 D-loop; other site 491916015946 H-loop/switch region; other site 491916015947 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 491916015948 Helix-turn-helix domain; Region: HTH_18; pfam12833 491916015949 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 491916015950 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 491916015951 putative molybdopterin cofactor binding site [chemical binding]; other site 491916015952 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 491916015953 putative molybdopterin cofactor binding site; other site 491916015954 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 491916015955 PAS fold; Region: PAS_4; pfam08448 491916015956 PAS fold; Region: PAS_7; pfam12860 491916015957 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916015958 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916015959 metal binding site [ion binding]; metal-binding site 491916015960 active site 491916015961 I-site; other site 491916015962 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 491916015963 active site 491916015964 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916015965 catalytic tetrad [active] 491916015966 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 491916015967 ribonucleoside-diphosphate reductase, alpha subunit; Region: NrdE_NrdA; TIGR02506 491916015968 heat shock protein 90; Provisional; Region: PRK05218 491916015969 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 491916015970 ATP binding site [chemical binding]; other site 491916015971 Mg2+ binding site [ion binding]; other site 491916015972 G-X-G motif; other site 491916015973 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 491916015974 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 491916015975 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 491916015976 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491916015977 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 491916015978 S-adenosylmethionine binding site [chemical binding]; other site 491916015979 Uncharacterized conserved protein [Function unknown]; Region: COG3189 491916015980 Predicted outer membrane protein [Function unknown]; Region: COG3652 491916015981 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 491916015982 RNA polymerase sigma factor; Provisional; Region: PRK11922 491916015983 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916015984 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 491916015985 DNA binding residues [nucleotide binding] 491916015986 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 491916015987 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 491916015988 classical (c) SDRs; Region: SDR_c; cd05233 491916015989 NAD(P) binding site [chemical binding]; other site 491916015990 active site 491916015991 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 491916015992 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 491916015993 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 491916015994 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 491916015995 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 491916015996 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 491916015997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916015998 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 491916015999 putative dimerization interface [polypeptide binding]; other site 491916016000 aspartate aminotransferase; Provisional; Region: PRK06107 491916016001 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 491916016002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916016003 homodimer interface [polypeptide binding]; other site 491916016004 catalytic residue [active] 491916016005 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 491916016006 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491916016007 Walker A/P-loop; other site 491916016008 ATP binding site [chemical binding]; other site 491916016009 Q-loop/lid; other site 491916016010 ABC transporter signature motif; other site 491916016011 Walker B; other site 491916016012 D-loop; other site 491916016013 H-loop/switch region; other site 491916016014 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916016015 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491916016016 Walker A/P-loop; other site 491916016017 ATP binding site [chemical binding]; other site 491916016018 Q-loop/lid; other site 491916016019 ABC transporter signature motif; other site 491916016020 Walker B; other site 491916016021 D-loop; other site 491916016022 H-loop/switch region; other site 491916016023 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 491916016024 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 491916016025 TM-ABC transporter signature motif; other site 491916016026 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916016027 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 491916016028 TM-ABC transporter signature motif; other site 491916016029 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 491916016030 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491916016031 ypc00378 491916016032 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916016033 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916016034 metal binding site [ion binding]; metal-binding site 491916016035 active site 491916016036 I-site; other site 491916016037 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 491916016038 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916016039 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 491916016040 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 491916016041 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 491916016042 TadE-like protein; Region: TadE; pfam07811 491916016043 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 491916016044 TadE-like protein; Region: TadE; pfam07811 491916016045 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 491916016046 Proline racemase; Region: Pro_racemase; pfam05544 491916016047 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 491916016048 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916016049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916016050 DNA-binding site [nucleotide binding]; DNA binding site 491916016051 FCD domain; Region: FCD; pfam07729 491916016052 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916016053 classical (c) SDRs; Region: SDR_c; cd05233 491916016054 NAD(P) binding site [chemical binding]; other site 491916016055 active site 491916016056 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 491916016057 classical (c) SDRs; Region: SDR_c; cd05233 491916016058 NAD(P) binding site [chemical binding]; other site 491916016059 active site 491916016060 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 491916016061 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 491916016062 betaine aldehyde dehydrogenase; Region: PLN02467 491916016063 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 491916016064 NAD(P) binding site [chemical binding]; other site 491916016065 catalytic residues [active] 491916016066 catalytic residues [active] 491916016067 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916016068 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916016069 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 491916016070 Proline racemase; Region: Pro_racemase; pfam05544 491916016071 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916016072 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916016073 inhibitor site; inhibition site 491916016074 active site 491916016075 dimer interface [polypeptide binding]; other site 491916016076 catalytic residue [active] 491916016077 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916016078 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 491916016079 dimer interface [polypeptide binding]; other site 491916016080 conserved gate region; other site 491916016081 putative PBP binding loops; other site 491916016082 ABC-ATPase subunit interface; other site 491916016083 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916016084 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 491916016085 dimer interface [polypeptide binding]; other site 491916016086 conserved gate region; other site 491916016087 putative PBP binding loops; other site 491916016088 ABC-ATPase subunit interface; other site 491916016089 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916016090 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916016091 Walker A/P-loop; other site 491916016092 ATP binding site [chemical binding]; other site 491916016093 Q-loop/lid; other site 491916016094 ABC transporter signature motif; other site 491916016095 Walker B; other site 491916016096 D-loop; other site 491916016097 H-loop/switch region; other site 491916016098 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 491916016099 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916016100 substrate binding pocket [chemical binding]; other site 491916016101 membrane-bound complex binding site; other site 491916016102 hinge residues; other site 491916016103 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491916016104 FCD domain; Region: FCD; pfam07729 491916016105 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 491916016106 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 491916016107 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 491916016108 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 491916016109 non-specific DNA binding site [nucleotide binding]; other site 491916016110 salt bridge; other site 491916016111 sequence-specific DNA binding site [nucleotide binding]; other site 491916016112 Cupin domain; Region: Cupin_2; pfam07883 491916016113 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 491916016114 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 491916016115 inhibitor-cofactor binding pocket; inhibition site 491916016116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916016117 catalytic residue [active] 491916016118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916016119 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916016120 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916016121 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 491916016122 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491916016123 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916016124 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 491916016125 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 491916016126 active site 491916016127 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491916016128 dimer interface [polypeptide binding]; other site 491916016129 substrate binding site [chemical binding]; other site 491916016130 catalytic residues [active] 491916016131 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491916016132 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 491916016133 putative DNA binding site [nucleotide binding]; other site 491916016134 putative Zn2+ binding site [ion binding]; other site 491916016135 AsnC family; Region: AsnC_trans_reg; pfam01037 491916016136 Autoinducer binding domain; Region: Autoind_bind; pfam03472 491916016137 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 491916016138 DNA binding residues [nucleotide binding] 491916016139 dimerization interface [polypeptide binding]; other site 491916016140 Autoinducer synthetase; Region: Autoind_synth; cl17404 491916016141 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 491916016142 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 491916016143 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491916016144 Ferritin-like; Region: Ferritin-like; pfam12902 491916016145 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 491916016146 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916016147 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916016148 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491916016149 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 491916016150 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 491916016151 dimer interface [polypeptide binding]; other site 491916016152 PYR/PP interface [polypeptide binding]; other site 491916016153 TPP binding site [chemical binding]; other site 491916016154 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491916016155 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 491916016156 TPP-binding site [chemical binding]; other site 491916016157 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 491916016158 PAS fold; Region: PAS_3; pfam08447 491916016159 putative active site [active] 491916016160 heme pocket [chemical binding]; other site 491916016161 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916016162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916016163 metal binding site [ion binding]; metal-binding site 491916016164 active site 491916016165 I-site; other site 491916016166 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 491916016167 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 491916016168 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 491916016169 dimerization interface [polypeptide binding]; other site 491916016170 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491916016171 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916016172 dimer interface [polypeptide binding]; other site 491916016173 putative CheW interface [polypeptide binding]; other site 491916016174 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 491916016175 NMT1-like family; Region: NMT1_2; pfam13379 491916016176 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491916016177 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 491916016178 putative PBP binding loops; other site 491916016179 dimer interface [polypeptide binding]; other site 491916016180 ABC-ATPase subunit interface; other site 491916016181 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491916016182 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491916016183 Walker A/P-loop; other site 491916016184 ATP binding site [chemical binding]; other site 491916016185 Q-loop/lid; other site 491916016186 ABC transporter signature motif; other site 491916016187 Walker B; other site 491916016188 D-loop; other site 491916016189 H-loop/switch region; other site 491916016190 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 491916016191 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 491916016192 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 491916016193 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916016194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491916016195 Condensation domain; Region: Condensation; pfam00668 491916016196 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 491916016197 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 491916016198 acyl-activating enzyme (AAE) consensus motif; other site 491916016199 AMP binding site [chemical binding]; other site 491916016200 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 491916016201 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 491916016202 MbtH-like protein; Region: MbtH; cl01279 491916016203 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 491916016204 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 491916016205 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 491916016206 putative efflux protein, MATE family; Region: matE; TIGR00797 491916016207 hypothetical protein; Provisional; Region: PRK05968 491916016208 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 491916016209 homodimer interface [polypeptide binding]; other site 491916016210 substrate-cofactor binding pocket; other site 491916016211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916016212 catalytic residue [active] 491916016213 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 491916016214 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 491916016215 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916016216 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916016217 Coenzyme A binding pocket [chemical binding]; other site 491916016218 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 491916016219 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 491916016220 siderophore binding site; other site 491916016221 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491916016222 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 491916016223 ABC-ATPase subunit interface; other site 491916016224 dimer interface [polypeptide binding]; other site 491916016225 putative PBP binding regions; other site 491916016226 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 491916016227 dimer interface [polypeptide binding]; other site 491916016228 putative PBP binding regions; other site 491916016229 ABC-ATPase subunit interface; other site 491916016230 short chain dehydrogenase; Provisional; Region: PRK06180 491916016231 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 491916016232 NADP binding site [chemical binding]; other site 491916016233 active site 491916016234 steroid binding site; other site 491916016235 Cupin; Region: Cupin_6; pfam12852 491916016236 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916016237 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 491916016238 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 491916016239 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 491916016240 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 491916016241 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 491916016242 N-terminal plug; other site 491916016243 ligand-binding site [chemical binding]; other site 491916016244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 491916016245 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916016246 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491916016247 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916016248 ligand binding site [chemical binding]; other site 491916016249 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 491916016250 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 491916016251 putative dimer interface [polypeptide binding]; other site 491916016252 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 491916016253 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 491916016254 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 491916016255 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 491916016256 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 491916016257 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916016258 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916016259 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916016260 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916016261 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916016262 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 491916016263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916016264 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 491916016265 Walker A/P-loop; other site 491916016266 ATP binding site [chemical binding]; other site 491916016267 Q-loop/lid; other site 491916016268 ABC transporter signature motif; other site 491916016269 Walker B; other site 491916016270 D-loop; other site 491916016271 H-loop/switch region; other site 491916016272 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 491916016273 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916016274 TM-ABC transporter signature motif; other site 491916016275 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916016276 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 491916016277 putative ligand binding site [chemical binding]; other site 491916016278 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916016279 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916016280 DNA binding site [nucleotide binding] 491916016281 domain linker motif; other site 491916016282 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 491916016283 putative ligand binding site [chemical binding]; other site 491916016284 putative dimerization interface [polypeptide binding]; other site 491916016285 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916016286 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 491916016287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916016288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916016289 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 491916016290 putative effector binding pocket; other site 491916016291 dimerization interface [polypeptide binding]; other site 491916016292 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 491916016293 active site 491916016294 catalytic site [active] 491916016295 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 491916016296 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 491916016297 BON domain; Region: BON; pfam04972 491916016298 BON domain; Region: BON; cl02771 491916016299 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 491916016300 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916016301 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916016302 Walker A/P-loop; other site 491916016303 ATP binding site [chemical binding]; other site 491916016304 Q-loop/lid; other site 491916016305 ABC transporter signature motif; other site 491916016306 Walker B; other site 491916016307 D-loop; other site 491916016308 H-loop/switch region; other site 491916016309 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 491916016310 dimer interface [polypeptide binding]; other site 491916016311 conserved gate region; other site 491916016312 putative PBP binding loops; other site 491916016313 ABC-ATPase subunit interface; other site 491916016314 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916016315 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 491916016316 dimer interface [polypeptide binding]; other site 491916016317 conserved gate region; other site 491916016318 putative PBP binding loops; other site 491916016319 ABC-ATPase subunit interface; other site 491916016320 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916016321 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 491916016322 substrate binding pocket [chemical binding]; other site 491916016323 membrane-bound complex binding site; other site 491916016324 hinge residues; other site 491916016325 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 491916016326 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916016327 DNA-binding site [nucleotide binding]; DNA binding site 491916016328 UTRA domain; Region: UTRA; pfam07702 491916016329 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491916016330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916016331 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 491916016332 dimerization interface [polypeptide binding]; other site 491916016333 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 491916016334 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 491916016335 active site 491916016336 non-prolyl cis peptide bond; other site 491916016337 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 491916016338 hypothetical protein; Provisional; Region: PRK07550 491916016339 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 491916016340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916016341 homodimer interface [polypeptide binding]; other site 491916016342 catalytic residue [active] 491916016343 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 491916016344 agmatinase; Region: agmatinase; TIGR01230 491916016345 oligomer interface [polypeptide binding]; other site 491916016346 putative active site [active] 491916016347 Mn binding site [ion binding]; other site 491916016348 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 491916016349 putative active site [active] 491916016350 Uncharacterized conserved protein [Function unknown]; Region: COG5397 491916016351 ypc00429 491916016352 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 491916016353 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 491916016354 active site 491916016355 phosphorylation site [posttranslational modification] 491916016356 intermolecular recognition site; other site 491916016357 dimerization interface [polypeptide binding]; other site 491916016358 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 491916016359 DNA binding residues [nucleotide binding] 491916016360 dimerization interface [polypeptide binding]; other site 491916016361 yic00002; insertion sequence:Integrase, catalytic core 491916016362 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 491916016363 homodimer interface [polypeptide binding]; other site 491916016364 putative active site [active] 491916016365 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 491916016366 Helix-turn-helix domain; Region: HTH_18; pfam12833 491916016367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916016368 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 491916016369 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 491916016370 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 491916016371 dimerization interface [polypeptide binding]; other site 491916016372 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491916016373 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491916016374 dimer interface [polypeptide binding]; other site 491916016375 putative CheW interface [polypeptide binding]; other site 491916016376 ypc00434 491916016377 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 491916016378 active site residue [active] 491916016379 ypc00436 491916016380 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491916016381 active site 491916016382 T5orf172 domain; Region: T5orf172; pfam10544 491916016383 Uncharacterized conserved protein [Function unknown]; Region: COG3586 491916016384 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491916016385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916016386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916016387 metal binding site [ion binding]; metal-binding site 491916016388 active site 491916016389 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 491916016390 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 491916016391 Walker A motif; other site 491916016392 ATP binding site [chemical binding]; other site 491916016393 Walker B motif; other site 491916016394 arginine finger; other site 491916016395 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 491916016396 Amidohydrolase; Region: Amidohydro_2; pfam04909 491916016397 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916016398 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491916016399 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 491916016400 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916016401 TM-ABC transporter signature motif; other site 491916016402 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916016403 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916016404 Walker A/P-loop; other site 491916016405 ATP binding site [chemical binding]; other site 491916016406 Q-loop/lid; other site 491916016407 ABC transporter signature motif; other site 491916016408 Walker B; other site 491916016409 D-loop; other site 491916016410 H-loop/switch region; other site 491916016411 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916016412 DctM-like transporters; Region: DctM; pfam06808 491916016413 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 491916016414 ypc00443 491916016415 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 491916016416 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 491916016417 PYR/PP interface [polypeptide binding]; other site 491916016418 dimer interface [polypeptide binding]; other site 491916016419 TPP binding site [chemical binding]; other site 491916016420 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491916016421 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 491916016422 TPP-binding site [chemical binding]; other site 491916016423 dimer interface [polypeptide binding]; other site 491916016424 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916016425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916016426 NAD(P) binding site [chemical binding]; other site 491916016427 active site 491916016428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916016429 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 491916016430 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 491916016431 dimerization interface [polypeptide binding]; other site 491916016432 substrate binding pocket [chemical binding]; other site 491916016433 LysR family transcriptional regulator; Provisional; Region: PRK14997 491916016434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916016435 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 491916016436 putative effector binding pocket; other site 491916016437 putative dimerization interface [polypeptide binding]; other site 491916016438 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 491916016439 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916016440 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491916016441 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916016442 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_3; cd07241 491916016443 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916016444 putative metal binding site [ion binding]; other site 491916016445 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916016446 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491916016447 inhibitor site; inhibition site 491916016448 active site 491916016449 dimer interface [polypeptide binding]; other site 491916016450 catalytic residue [active] 491916016451 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916016452 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 491916016453 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916016454 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 491916016455 dimer interface [polypeptide binding]; other site 491916016456 conserved gate region; other site 491916016457 putative PBP binding loops; other site 491916016458 ABC-ATPase subunit interface; other site 491916016459 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916016460 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 491916016461 dimer interface [polypeptide binding]; other site 491916016462 conserved gate region; other site 491916016463 ABC-ATPase subunit interface; other site 491916016464 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 491916016465 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916016466 Walker A/P-loop; other site 491916016467 ATP binding site [chemical binding]; other site 491916016468 Q-loop/lid; other site 491916016469 ABC transporter signature motif; other site 491916016470 Walker B; other site 491916016471 D-loop; other site 491916016472 H-loop/switch region; other site 491916016473 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916016474 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916016475 Walker A/P-loop; other site 491916016476 ATP binding site [chemical binding]; other site 491916016477 Q-loop/lid; other site 491916016478 ABC transporter signature motif; other site 491916016479 Walker B; other site 491916016480 D-loop; other site 491916016481 H-loop/switch region; other site 491916016482 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916016483 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491916016484 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 491916016485 Bacterial transcriptional regulator; Region: IclR; pfam01614 491916016486 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916016487 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916016488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 491916016489 Putative glucoamylase; Region: Glycoamylase; pfam10091 491916016490 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 491916016491 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 491916016492 homodimer interface [polypeptide binding]; other site 491916016493 substrate-cofactor binding pocket; other site 491916016494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916016495 catalytic residue [active] 491916016496 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 491916016497 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916016498 putative substrate translocation pore; other site 491916016499 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 491916016500 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491916016501 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_9; cd07245 491916016502 dimer interface [polypeptide binding]; other site 491916016503 putative metal binding site [ion binding]; other site 491916016504 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 491916016505 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 491916016506 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491916016507 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 491916016508 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491916016509 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 491916016510 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 491916016511 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491916016512 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 491916016513 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491916016514 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 491916016515 Aspartase; Region: Aspartase; cd01357 491916016516 active sites [active] 491916016517 tetramer interface [polypeptide binding]; other site 491916016518 Fumarase C C-terminus; Region: FumaraseC_C; pfam10415 491916016519 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 491916016520 non-specific DNA binding site [nucleotide binding]; other site 491916016521 salt bridge; other site 491916016522 sequence-specific DNA binding site [nucleotide binding]; other site 491916016523 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916016524 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916016525 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916016526 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916016527 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 491916016528 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491916016529 putative substrate translocation pore; other site 491916016530 choline dehydrogenase; Validated; Region: PRK02106 491916016531 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491916016532 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 491916016533 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491916016534 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916016535 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916016536 Walker A/P-loop; other site 491916016537 ATP binding site [chemical binding]; other site 491916016538 Q-loop/lid; other site 491916016539 ABC transporter signature motif; other site 491916016540 Walker B; other site 491916016541 D-loop; other site 491916016542 H-loop/switch region; other site 491916016543 TOBE domain; Region: TOBE; pfam03459 491916016544 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916016545 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 491916016546 dimer interface [polypeptide binding]; other site 491916016547 conserved gate region; other site 491916016548 putative PBP binding loops; other site 491916016549 ABC-ATPase subunit interface; other site 491916016550 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 491916016551 dimer interface [polypeptide binding]; other site 491916016552 conserved gate region; other site 491916016553 putative PBP binding loops; other site 491916016554 ABC-ATPase subunit interface; other site 491916016555 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916016556 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916016557 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 491916016558 histidinol dehydrogenase; Region: hisD; TIGR00069 491916016559 NAD binding site [chemical binding]; other site 491916016560 dimerization interface [polypeptide binding]; other site 491916016561 product binding site; other site 491916016562 substrate binding site [chemical binding]; other site 491916016563 zinc binding site [ion binding]; other site 491916016564 catalytic residues [active] 491916016565 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 491916016566 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491916016567 PYR/PP interface [polypeptide binding]; other site 491916016568 dimer interface [polypeptide binding]; other site 491916016569 TPP binding site [chemical binding]; other site 491916016570 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491916016571 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 491916016572 TPP-binding site [chemical binding]; other site 491916016573 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491916016574 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 491916016575 active site 491916016576 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 491916016577 D-cysteine desulfhydrase; Validated; Region: PRK03910 491916016578 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 491916016579 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916016580 catalytic residue [active] 491916016581 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491916016582 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491916016583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916016584 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491916016585 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916016586 Walker A/P-loop; other site 491916016587 ATP binding site [chemical binding]; other site 491916016588 Q-loop/lid; other site 491916016589 ABC transporter signature motif; other site 491916016590 Walker B; other site 491916016591 D-loop; other site 491916016592 H-loop/switch region; other site 491916016593 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916016594 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 491916016595 substrate binding pocket [chemical binding]; other site 491916016596 membrane-bound complex binding site; other site 491916016597 hinge residues; other site 491916016598 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916016599 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 491916016600 dimer interface [polypeptide binding]; other site 491916016601 conserved gate region; other site 491916016602 putative PBP binding loops; other site 491916016603 ABC-ATPase subunit interface; other site 491916016604 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916016605 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 491916016606 dimer interface [polypeptide binding]; other site 491916016607 conserved gate region; other site 491916016608 putative PBP binding loops; other site 491916016609 ABC-ATPase subunit interface; other site 491916016610 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 491916016611 homotrimer interaction site [polypeptide binding]; other site 491916016612 putative active site [active] 491916016613 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 491916016614 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 491916016615 dimer interface [polypeptide binding]; other site 491916016616 active site 491916016617 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491916016618 substrate binding site [chemical binding]; other site 491916016619 catalytic residue [active] 491916016620 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 491916016621 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 491916016622 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 491916016623 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 491916016624 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 491916016625 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916016626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916016627 DNA-binding site [nucleotide binding]; DNA binding site 491916016628 FCD domain; Region: FCD; pfam07729 491916016629 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 491916016630 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916016631 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 491916016632 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 491916016633 tetramer interface [polypeptide binding]; other site 491916016634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916016635 catalytic residue [active] 491916016636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916016637 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916016638 active site 491916016639 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 491916016640 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 491916016641 dimer interface [polypeptide binding]; other site 491916016642 NADP binding site [chemical binding]; other site 491916016643 catalytic residues [active] 491916016644 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491916016645 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 491916016646 putative active site [active] 491916016647 catalytic residue [active] 491916016648 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 491916016649 Antitoxin ParD; Region: ParD; pfam09386 491916016650 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916016651 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 491916016652 RibD C-terminal domain; Region: RibD_C; cl17279 491916016653 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 491916016654 ypc00497 491916016655 yic00003; insertion sequence:Transposase IS3/IS911 491916016656 yic00004; insertion sequence:Transposase (putative), IS66 Orf2 like 491916016657 yic00005; insertion sequence:Transposase, IS66 491916016658 ypc00498 491916016659 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 491916016660 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 491916016661 Protein of unknown function (DUF1629); Region: DUF1629; pfam07791 491916016662 Domain of unknown function (DUF4261); Region: DUF4261; pfam14080 491916016663 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 491916016664 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916016665 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 491916016666 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 491916016667 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916016668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916016669 Walker A/P-loop; other site 491916016670 ATP binding site [chemical binding]; other site 491916016671 Q-loop/lid; other site 491916016672 ABC transporter signature motif; other site 491916016673 Walker B; other site 491916016674 D-loop; other site 491916016675 H-loop/switch region; other site 491916016676 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 491916016677 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 491916016678 Bacterial sugar transferase; Region: Bac_transf; pfam02397 491916016679 ypc00503 491916016680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916016681 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 491916016682 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 491916016683 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 491916016684 Chain length determinant protein; Region: Wzz; cl15801 491916016685 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 491916016686 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 491916016687 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 491916016688 P-loop; other site 491916016689 Magnesium ion binding site [ion binding]; other site 491916016690 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491916016691 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 491916016692 putative NAD(P) binding site [chemical binding]; other site 491916016693 active site 491916016694 putative substrate binding site [chemical binding]; other site 491916016695 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 491916016696 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916016697 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916016698 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 491916016699 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916016700 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 491916016701 Walker A/P-loop; other site 491916016702 ATP binding site [chemical binding]; other site 491916016703 Q-loop/lid; other site 491916016704 ABC transporter signature motif; other site 491916016705 Walker B; other site 491916016706 D-loop; other site 491916016707 H-loop/switch region; other site 491916016708 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 491916016709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916016710 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 491916016711 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 491916016712 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 491916016713 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916016714 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916016715 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 491916016716 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 491916016717 Protein of unknown function (DUF982); Region: DUF982; pfam06169 491916016718 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 491916016719 GIY-YIG motif/motif A; other site 491916016720 active site 491916016721 catalytic site [active] 491916016722 AAA domain; Region: AAA_23; pfam13476 491916016723 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916016724 Walker A/P-loop; other site 491916016725 ATP binding site [chemical binding]; other site 491916016726 AAA domain; Region: AAA_21; pfam13304 491916016727 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 491916016728 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 491916016729 Family description; Region: UvrD_C_2; pfam13538 491916016730 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 491916016731 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 491916016732 HTH DNA binding domain; Region: HTH_13; pfam11972 491916016733 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 491916016734 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 491916016735 putative active site [active] 491916016736 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916016737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916016738 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 491916016739 dimerization interface [polypeptide binding]; other site 491916016740 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916016741 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 491916016742 dimer interface [polypeptide binding]; other site 491916016743 conserved gate region; other site 491916016744 putative PBP binding loops; other site 491916016745 ABC-ATPase subunit interface; other site 491916016746 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 491916016747 dimer interface [polypeptide binding]; other site 491916016748 conserved gate region; other site 491916016749 putative PBP binding loops; other site 491916016750 ABC-ATPase subunit interface; other site 491916016751 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 491916016752 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 491916016753 substrate binding pocket [chemical binding]; other site 491916016754 membrane-bound complex binding site; other site 491916016755 hinge residues; other site 491916016756 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 491916016757 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 491916016758 putative active site [active] 491916016759 putative metal binding site [ion binding]; other site 491916016760 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 491916016761 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916016762 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 491916016763 non-specific DNA binding site [nucleotide binding]; other site 491916016764 salt bridge; other site 491916016765 sequence-specific DNA binding site [nucleotide binding]; other site 491916016766 H+ Antiporter protein; Region: 2A0121; TIGR00900 491916016767 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 491916016768 putative substrate translocation pore; other site 491916016769 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491916016770 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916016771 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 491916016772 S-adenosylmethionine binding site [chemical binding]; other site 491916016773 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 491916016774 MobA/MobL family; Region: MobA_MobL; pfam03389 491916016775 AAA domain; Region: AAA_30; pfam13604 491916016776 Family description; Region: UvrD_C_2; pfam13538 491916016777 TraC-like protein; Region: TraC; pfam07820 491916016778 Conjugal transfer protein TraD; Region: TraD; pfam06412 491916016779 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 491916016780 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 491916016781 Walker A motif; other site 491916016782 ATP binding site [chemical binding]; other site 491916016783 Walker B motif; other site 491916016784 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 491916016785 Uncharacterized conserved protein [Function unknown]; Region: COG5489 491916016786 Predicted transcriptional regulator [Transcription]; Region: COG3905 491916016787 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 491916016788 Toprim domain; Region: Toprim_3; pfam13362 491916016789 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 491916016790 Protein of unknown function (DUF433); Region: DUF433; pfam04255 491916016791 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 491916016792 homodimer interface [polypeptide binding]; other site 491916016793 putative active site [active] 491916016794 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 491916016795 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 491916016796 Walker A motif; other site 491916016797 hexamer interface [polypeptide binding]; other site 491916016798 ATP binding site [chemical binding]; other site 491916016799 Walker B motif; other site 491916016800 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 491916016801 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 491916016802 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 491916016803 VirB7 interaction site; other site 491916016804 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 491916016805 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 491916016806 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 491916016807 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 491916016808 Type IV secretion system proteins; Region: T4SS; pfam07996 491916016809 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 491916016810 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 491916016811 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 491916016812 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 491916016813 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 491916016814 ParB-like nuclease domain; Region: ParBc; pfam02195 491916016815 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 491916016816 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 491916016817 NAD(P) binding site [chemical binding]; other site 491916016818 catalytic residues [active] 491916016819 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 491916016820 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 491916016821 catalytic Zn binding site [ion binding]; other site 491916016822 NAD binding site [chemical binding]; other site 491916016823 structural Zn binding site [ion binding]; other site 491916016824 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 491916016825 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 491916016826 substrate binding site [chemical binding]; other site 491916016827 oxyanion hole (OAH) forming residues; other site 491916016828 trimer interface [polypeptide binding]; other site 491916016829 acyl-CoA synthetase; Validated; Region: PRK09088 491916016830 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 491916016831 acyl-activating enzyme (AAE) consensus motif; other site 491916016832 AMP binding site [chemical binding]; other site 491916016833 active site 491916016834 CoA binding site [chemical binding]; other site 491916016835 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491916016836 MarR family; Region: MarR; pfam01047 491916016837 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916016838 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916016839 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916016840 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 491916016841 NAD(P) binding site [chemical binding]; other site 491916016842 catalytic residues [active] 491916016843 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 491916016844 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_4; cd06337 491916016845 putative ligand binding site [chemical binding]; other site 491916016846 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916016847 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491916016848 Walker A/P-loop; other site 491916016849 ATP binding site [chemical binding]; other site 491916016850 Q-loop/lid; other site 491916016851 ABC transporter signature motif; other site 491916016852 Walker B; other site 491916016853 D-loop; other site 491916016854 H-loop/switch region; other site 491916016855 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 491916016856 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491916016857 Walker A/P-loop; other site 491916016858 ATP binding site [chemical binding]; other site 491916016859 Q-loop/lid; other site 491916016860 ABC transporter signature motif; other site 491916016861 Walker B; other site 491916016862 D-loop; other site 491916016863 H-loop/switch region; other site 491916016864 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916016865 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 491916016866 TM-ABC transporter signature motif; other site 491916016867 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916016868 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 491916016869 TM-ABC transporter signature motif; other site 491916016870 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 491916016871 alpha hydroxysteroid dehydrogenase (3alpha_HSD), classical (c) SDRs; Region: 3alpha_HSD_SDR_c; cd05328 491916016872 NAD binding site [chemical binding]; other site 491916016873 active site 491916016874 homodimer interface [polypeptide binding]; other site 491916016875 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491916016876 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 491916016877 NAD(P) binding site [chemical binding]; other site 491916016878 catalytic residues [active] 491916016879 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 491916016880 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 491916016881 Protein of unknown function (DUF1628); Region: DUF1628; cl01360 491916016882 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 491916016883 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 491916016884 Protein phosphatase 2C; Region: PP2C; pfam00481 491916016885 active site 491916016886 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491916016887 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916016888 ligand binding site [chemical binding]; other site 491916016889 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 491916016890 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 491916016891 Walker A motif; other site 491916016892 ATP binding site [chemical binding]; other site 491916016893 Walker B motif; other site 491916016894 arginine finger; other site 491916016895 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 491916016896 Walker A motif; other site 491916016897 ATP binding site [chemical binding]; other site 491916016898 Walker B motif; other site 491916016899 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 491916016900 Protein kinase domain; Region: Pkinase; pfam00069 491916016901 Catalytic domain of Protein Kinases; Region: PKc; cd00180 491916016902 active site 491916016903 ATP binding site [chemical binding]; other site 491916016904 substrate binding site [chemical binding]; other site 491916016905 activation loop (A-loop); other site 491916016906 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 491916016907 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 491916016908 Protein of unknown function (DUF770); Region: DUF770; cl01402 491916016909 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 491916016910 Protein of unknown function (DUF877); Region: DUF877; pfam05943 491916016911 Protein of unknown function (DUF796); Region: DUF796; pfam05638 491916016912 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 491916016913 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 491916016914 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 491916016915 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 491916016916 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 491916016917 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; cd00060 491916016918 phosphopeptide binding site; other site 491916016919 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 491916016920 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 491916016921 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 491916016922 hypothetical protein; Provisional; Region: PRK07033 491916016923 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 491916016924 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491916016925 ligand binding site [chemical binding]; other site 491916016926 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 491916016927 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 491916016928 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 491916016929 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 491916016930 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 491916016931 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 491916016932 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 491916016933 conserved hypothetical protein; Region: TIGR02270 491916016934 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 491916016935 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 491916016936 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 491916016937 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 491916016938 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 491916016939 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 491916016940 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 491916016941 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916016942 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 491916016943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 491916016944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491916016945 active site 491916016946 Uncharacterized conserved protein [Function unknown]; Region: COG5663 491916016947 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 491916016948 Caspase domain; Region: Peptidase_C14; pfam00656 491916016949 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 491916016950 Sel1-like repeats; Region: SEL1; smart00671 491916016951 Sel1-like repeats; Region: SEL1; smart00671 491916016952 transcriptional regulator NanR; Provisional; Region: PRK03837 491916016953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916016954 DNA-binding site [nucleotide binding]; DNA binding site 491916016955 FCD domain; Region: FCD; pfam07729 491916016956 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 491916016957 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 491916016958 dimer interface [polypeptide binding]; other site 491916016959 active site 491916016960 catalytic residue [active] 491916016961 metal binding site [ion binding]; metal-binding site 491916016962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 491916016963 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 491916016964 substrate binding site [chemical binding]; other site 491916016965 dimer interface [polypeptide binding]; other site 491916016966 catalytic triad [active] 491916016967 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 491916016968 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 491916016969 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916016970 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 491916016971 ligand binding site [chemical binding]; other site 491916016972 dimerization interface [polypeptide binding]; other site 491916016973 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 491916016974 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916016975 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916016976 Walker A/P-loop; other site 491916016977 ATP binding site [chemical binding]; other site 491916016978 Q-loop/lid; other site 491916016979 ABC transporter signature motif; other site 491916016980 Walker B; other site 491916016981 D-loop; other site 491916016982 H-loop/switch region; other site 491916016983 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916016984 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 491916016985 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916016986 TM-ABC transporter signature motif; other site 491916016987 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916016988 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916016989 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916016990 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 491916016991 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 491916016992 DAK2 domain; Region: Dak2; cl03685 491916016993 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 491916016994 putative DNA binding site [nucleotide binding]; other site 491916016995 putative Zn2+ binding site [ion binding]; other site 491916016996 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916016997 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491916016998 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916016999 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916017000 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916017001 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916017002 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916017003 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 491916017004 dimer interface [polypeptide binding]; other site 491916017005 conserved gate region; other site 491916017006 putative PBP binding loops; other site 491916017007 ABC-ATPase subunit interface; other site 491916017008 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916017009 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 491916017010 dimer interface [polypeptide binding]; other site 491916017011 conserved gate region; other site 491916017012 putative PBP binding loops; other site 491916017013 ABC-ATPase subunit interface; other site 491916017014 MarR family; Region: MarR; pfam01047 491916017015 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916017016 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491916017017 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491916017018 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 491916017019 AP (apurinic/apyrimidinic) site pocket; other site 491916017020 DNA interaction; other site 491916017021 Metal-binding active site; metal-binding site 491916017022 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 491916017023 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916017024 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916017025 Walker A/P-loop; other site 491916017026 ATP binding site [chemical binding]; other site 491916017027 Q-loop/lid; other site 491916017028 ABC transporter signature motif; other site 491916017029 Walker B; other site 491916017030 D-loop; other site 491916017031 H-loop/switch region; other site 491916017032 TOBE domain; Region: TOBE_2; pfam08402 491916017033 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 491916017034 MerR family regulatory protein; Region: MerR; pfam00376 491916017035 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 491916017036 P-loop; other site 491916017037 Magnesium ion binding site [ion binding]; other site 491916017038 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 491916017039 Magnesium ion binding site [ion binding]; other site 491916017040 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 491916017041 ParB-like nuclease domain; Region: ParB; smart00470 491916017042 replication initiation protein RepC; Provisional; Region: PRK13824 491916017043 Replication protein C N-terminal domain; Region: RP-C; pfam03428 491916017044 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 491916017045 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 491916017046 HTH DNA binding domain; Region: HTH_13; pfam11972 491916017047 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 491916017048 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 491916017049 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 491916017050 RNA polymerase sigma factor; Provisional; Region: PRK12511 491916017051 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916017052 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 491916017053 DNA binding residues [nucleotide binding] 491916017054 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 491916017055 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 491916017056 DNA binding residues [nucleotide binding] 491916017057 dimer interface [polypeptide binding]; other site 491916017058 copper binding site [ion binding]; other site 491916017059 YHS domain; Region: YHS; pfam04945 491916017060 YHS domain; Region: YHS; pfam04945 491916017061 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 491916017062 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491916017063 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 491916017064 active site 491916017065 motif I; other site 491916017066 motif II; other site 491916017067 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 491916017068 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 491916017069 active site 491916017070 catalytic site [active] 491916017071 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 491916017072 Transglycosylase; Region: Transgly; pfam00912 491916017073 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 491916017074 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 491916017075 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 491916017076 putative binding site; other site 491916017077 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 491916017078 MG2 domain; Region: A2M_N; pfam01835 491916017079 Alpha-2-macroglobulin family; Region: A2M; pfam00207 491916017080 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 491916017081 surface patch; other site 491916017082 thioester region; other site 491916017083 specificity defining residues; other site 491916017084 methionine sulfoxide reductase A; Provisional; Region: PRK13014 491916017085 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491916017086 response regulator; Provisional; Region: PRK13435 491916017087 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 491916017088 active site 491916017089 phosphorylation site [posttranslational modification] 491916017090 intermolecular recognition site; other site 491916017091 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916017092 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916017093 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 491916017094 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 491916017095 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 491916017096 putative substrate translocation pore; other site 491916017097 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 491916017098 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 491916017099 putative substrate translocation pore; other site 491916017100 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916017101 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916017102 DNA binding site [nucleotide binding] 491916017103 domain linker motif; other site 491916017104 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 491916017105 ligand binding site [chemical binding]; other site 491916017106 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916017107 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491916017108 DNA binding site [nucleotide binding] 491916017109 domain linker motif; other site 491916017110 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 491916017111 putative dimerization interface [polypeptide binding]; other site 491916017112 putative ligand binding site [chemical binding]; other site 491916017113 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916017114 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916017115 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 491916017116 Walker A/P-loop; other site 491916017117 ATP binding site [chemical binding]; other site 491916017118 Q-loop/lid; other site 491916017119 ABC transporter signature motif; other site 491916017120 Walker B; other site 491916017121 D-loop; other site 491916017122 H-loop/switch region; other site 491916017123 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916017124 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916017125 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916017126 Walker A/P-loop; other site 491916017127 ATP binding site [chemical binding]; other site 491916017128 Q-loop/lid; other site 491916017129 ABC transporter signature motif; other site 491916017130 Walker B; other site 491916017131 D-loop; other site 491916017132 H-loop/switch region; other site 491916017133 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491916017134 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 491916017135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 491916017136 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 491916017137 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 491916017138 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491916017139 putative active site [active] 491916017140 heme pocket [chemical binding]; other site 491916017141 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 491916017142 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 491916017143 putative active site [active] 491916017144 heme pocket [chemical binding]; other site 491916017145 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 491916017146 dimer interface [polypeptide binding]; other site 491916017147 phosphorylation site [posttranslational modification] 491916017148 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 491916017149 ATP binding site [chemical binding]; other site 491916017150 Mg2+ binding site [ion binding]; other site 491916017151 G-X-G motif; other site 491916017152 Response regulator receiver domain; Region: Response_reg; pfam00072 491916017153 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 491916017154 active site 491916017155 phosphorylation site [posttranslational modification] 491916017156 intermolecular recognition site; other site 491916017157 dimerization interface [polypeptide binding]; other site 491916017158 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 491916017159 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 491916017160 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 491916017161 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 491916017162 Subunit I/III interface [polypeptide binding]; other site 491916017163 Subunit III/IV interface [polypeptide binding]; other site 491916017164 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 491916017165 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 491916017166 D-pathway; other site 491916017167 Putative ubiquinol binding site [chemical binding]; other site 491916017168 Low-spin heme (heme b) binding site [chemical binding]; other site 491916017169 Putative water exit pathway; other site 491916017170 Binuclear center (heme o3/CuB) [ion binding]; other site 491916017171 K-pathway; other site 491916017172 Putative proton exit pathway; other site 491916017173 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 491916017174 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 491916017175 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 491916017176 metabolite-proton symporter; Region: 2A0106; TIGR00883 491916017177 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 491916017178 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 491916017179 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 491916017180 active site 491916017181 metal binding site [ion binding]; metal-binding site 491916017182 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491916017183 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 491916017184 ligand binding site [chemical binding]; other site 491916017185 flexible hinge region; other site 491916017186 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916017187 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491916017188 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 491916017189 Walker A/P-loop; other site 491916017190 ATP binding site [chemical binding]; other site 491916017191 Q-loop/lid; other site 491916017192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916017193 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491916017194 ABC transporter signature motif; other site 491916017195 Walker B; other site 491916017196 D-loop; other site 491916017197 H-loop/switch region; other site 491916017198 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 491916017199 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 491916017200 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 491916017201 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 491916017202 putative ADP-binding pocket [chemical binding]; other site 491916017203 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 491916017204 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 491916017205 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 491916017206 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916017207 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 491916017208 dimer interface [polypeptide binding]; other site 491916017209 conserved gate region; other site 491916017210 putative PBP binding loops; other site 491916017211 ABC-ATPase subunit interface; other site 491916017212 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916017213 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 491916017214 dimer interface [polypeptide binding]; other site 491916017215 conserved gate region; other site 491916017216 putative PBP binding loops; other site 491916017217 ABC-ATPase subunit interface; other site 491916017218 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916017219 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 491916017220 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 491916017221 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916017222 Walker A/P-loop; other site 491916017223 ATP binding site [chemical binding]; other site 491916017224 Q-loop/lid; other site 491916017225 ABC transporter signature motif; other site 491916017226 Walker B; other site 491916017227 D-loop; other site 491916017228 H-loop/switch region; other site 491916017229 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 491916017230 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916017231 Walker A/P-loop; other site 491916017232 ATP binding site [chemical binding]; other site 491916017233 Q-loop/lid; other site 491916017234 ABC transporter signature motif; other site 491916017235 Walker B; other site 491916017236 D-loop; other site 491916017237 H-loop/switch region; other site 491916017238 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916017239 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916017240 cyclase homology domain; Region: CHD; cd07302 491916017241 nucleotidyl binding site; other site 491916017242 metal binding site [ion binding]; metal-binding site 491916017243 dimer interface [polypeptide binding]; other site 491916017244 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 491916017245 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 491916017246 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 491916017247 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 491916017248 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 491916017249 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 491916017250 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 491916017251 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 491916017252 Cache domain; Region: Cache_1; pfam02743 491916017253 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916017254 cyclase homology domain; Region: CHD; cd07302 491916017255 nucleotidyl binding site; other site 491916017256 metal binding site [ion binding]; metal-binding site 491916017257 dimer interface [polypeptide binding]; other site 491916017258 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 491916017259 Succinate dehydrogenase/Fumarate reductase transmembrane subunit; Region: Sdh_cyt; pfam01127 491916017260 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 491916017261 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 491916017262 catalytic loop [active] 491916017263 iron binding site [ion binding]; other site 491916017264 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916017265 cyclase homology domain; Region: CHD; cd07302 491916017266 nucleotidyl binding site; other site 491916017267 metal binding site [ion binding]; metal-binding site 491916017268 dimer interface [polypeptide binding]; other site 491916017269 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491916017270 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 491916017271 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 491916017272 NodB motif; other site 491916017273 putative active site [active] 491916017274 putative catalytic site [active] 491916017275 putative Zn binding site [ion binding]; other site 491916017276 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491916017277 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491916017278 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 491916017279 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 491916017280 tetramer interface [polypeptide binding]; other site 491916017281 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 491916017282 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 491916017283 heterodimer interface [polypeptide binding]; other site 491916017284 active site 491916017285 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 491916017286 heterodimer interface [polypeptide binding]; other site 491916017287 multimer interface [polypeptide binding]; other site 491916017288 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 491916017289 active site 491916017290 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 491916017291 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491916017292 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 491916017293 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 491916017294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916017295 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 491916017296 dimerization interface [polypeptide binding]; other site 491916017297 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 491916017298 RES domain; Region: RES; smart00953 491916017299 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 491916017300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916017301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916017302 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 491916017303 putative effector binding pocket; other site 491916017304 dimerization interface [polypeptide binding]; other site 491916017305 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 491916017306 putative active site [active] 491916017307 metal binding site [ion binding]; metal-binding site 491916017308 Predicted membrane protein [Function unknown]; Region: COG2259 491916017309 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 491916017310 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 491916017311 putative NAD(P) binding site [chemical binding]; other site 491916017312 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 491916017313 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 491916017314 HSP70 interaction site [polypeptide binding]; other site 491916017315 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 491916017316 HutD; Region: HutD; pfam05962 491916017317 urocanate hydratase; Provisional; Region: PRK05414 491916017318 N-formylglutamate amidohydrolase; Region: FGase; cl01522 491916017319 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 491916017320 active sites [active] 491916017321 tetramer interface [polypeptide binding]; other site 491916017322 imidazolonepropionase; Validated; Region: PRK09356 491916017323 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 491916017324 active site 491916017325 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 491916017326 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 491916017327 active site 491916017328 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916017329 DNA-binding site [nucleotide binding]; DNA binding site 491916017330 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 491916017331 UTRA domain; Region: UTRA; pfam07702 491916017332 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 491916017333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916017334 DNA-binding site [nucleotide binding]; DNA binding site 491916017335 UTRA domain; Region: UTRA; pfam07702 491916017336 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 491916017337 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491916017338 substrate binding pocket [chemical binding]; other site 491916017339 membrane-bound complex binding site; other site 491916017340 hinge residues; other site 491916017341 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916017342 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 491916017343 dimer interface [polypeptide binding]; other site 491916017344 conserved gate region; other site 491916017345 putative PBP binding loops; other site 491916017346 ABC-ATPase subunit interface; other site 491916017347 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491916017348 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 491916017349 dimer interface [polypeptide binding]; other site 491916017350 conserved gate region; other site 491916017351 putative PBP binding loops; other site 491916017352 ABC-ATPase subunit interface; other site 491916017353 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 491916017354 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491916017355 Walker A/P-loop; other site 491916017356 ATP binding site [chemical binding]; other site 491916017357 Q-loop/lid; other site 491916017358 ABC transporter signature motif; other site 491916017359 Walker B; other site 491916017360 D-loop; other site 491916017361 H-loop/switch region; other site 491916017362 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 491916017363 active sites [active] 491916017364 tetramer interface [polypeptide binding]; other site 491916017365 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 491916017366 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 491916017367 active site 491916017368 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491916017369 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916017370 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 491916017371 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491916017372 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491916017373 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916017374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916017375 alpha-galactosidase; Provisional; Region: PRK15076 491916017376 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 491916017377 NAD binding site [chemical binding]; other site 491916017378 sugar binding site [chemical binding]; other site 491916017379 divalent metal binding site [ion binding]; other site 491916017380 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 491916017381 dimer interface [polypeptide binding]; other site 491916017382 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 491916017383 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 491916017384 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916017385 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 491916017386 dimer interface [polypeptide binding]; other site 491916017387 conserved gate region; other site 491916017388 putative PBP binding loops; other site 491916017389 ABC-ATPase subunit interface; other site 491916017390 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 491916017391 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916017392 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 491916017393 dimer interface [polypeptide binding]; other site 491916017394 conserved gate region; other site 491916017395 putative PBP binding loops; other site 491916017396 ABC-ATPase subunit interface; other site 491916017397 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 491916017398 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916017399 Walker A/P-loop; other site 491916017400 ATP binding site [chemical binding]; other site 491916017401 Q-loop/lid; other site 491916017402 ABC transporter signature motif; other site 491916017403 Walker B; other site 491916017404 D-loop; other site 491916017405 H-loop/switch region; other site 491916017406 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916017407 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916017408 Walker A/P-loop; other site 491916017409 ATP binding site [chemical binding]; other site 491916017410 Q-loop/lid; other site 491916017411 ABC transporter signature motif; other site 491916017412 Walker B; other site 491916017413 D-loop; other site 491916017414 H-loop/switch region; other site 491916017415 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916017416 alpha-galactosidase; Provisional; Region: PRK15076 491916017417 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 491916017418 NAD binding site [chemical binding]; other site 491916017419 sugar binding site [chemical binding]; other site 491916017420 divalent metal binding site [ion binding]; other site 491916017421 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 491916017422 dimer interface [polypeptide binding]; other site 491916017423 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 491916017424 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 491916017425 DNA methylase; Region: N6_N4_Mtase; pfam01555 491916017426 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 491916017427 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 491916017428 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 491916017429 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 491916017430 carboxy-terminal protease; Provisional; Region: PRK11186 491916017431 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 491916017432 elongation factor G; Reviewed; Region: PRK12740 491916017433 G1 box; other site 491916017434 GTP/Mg2+ binding site [chemical binding]; other site 491916017435 G2 box; other site 491916017436 Switch I region; other site 491916017437 G3 box; other site 491916017438 Switch II region; other site 491916017439 G4 box; other site 491916017440 G5 box; other site 491916017441 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 491916017442 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 491916017443 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 491916017444 putative active site [active] 491916017445 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 491916017446 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 491916017447 protein binding site [polypeptide binding]; other site 491916017448 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 491916017449 Catalytic dyad [active] 491916017450 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 491916017451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 491916017452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916017453 Coenzyme A binding pocket [chemical binding]; other site 491916017454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491916017455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491916017456 metal binding site [ion binding]; metal-binding site 491916017457 active site 491916017458 I-site; other site 491916017459 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 491916017460 Zn binding site [ion binding]; other site 491916017461 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 491916017462 TfuA-like protein; Region: TfuA; pfam07812 491916017463 Uncharacterized conserved protein [Function unknown]; Region: COG1944 491916017464 YcaO-like family; Region: YcaO; pfam02624 491916017465 cyclase homology domain; Region: CHD; cd07302 491916017466 nucleotidyl binding site; other site 491916017467 metal binding site [ion binding]; metal-binding site 491916017468 dimer interface [polypeptide binding]; other site 491916017469 AAA ATPase domain; Region: AAA_16; pfam13191 491916017470 Predicted ATPase [General function prediction only]; Region: COG3903 491916017471 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 491916017472 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 491916017473 AMP binding site [chemical binding]; other site 491916017474 active site 491916017475 acyl-activating enzyme (AAE) consensus motif; other site 491916017476 CoA binding site [chemical binding]; other site 491916017477 Acyltransferase family; Region: Acyl_transf_3; pfam01757 491916017478 AAA domain; Region: AAA_17; pfam13207 491916017479 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 491916017480 cyclase homology domain; Region: CHD; cd07302 491916017481 nucleotidyl binding site; other site 491916017482 metal binding site [ion binding]; metal-binding site 491916017483 dimer interface [polypeptide binding]; other site 491916017484 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916017485 TPR repeat; Region: TPR_11; pfam13414 491916017486 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 491916017487 TPR motif; other site 491916017488 binding surface 491916017489 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491916017490 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 491916017491 TPR motif; other site 491916017492 binding surface 491916017493 TPR repeat; Region: TPR_11; pfam13414 491916017494 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 491916017495 putative hydrophobic ligand binding site [chemical binding]; other site 491916017496 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 491916017497 dimerization interface [polypeptide binding]; other site 491916017498 putative DNA binding site [nucleotide binding]; other site 491916017499 putative Zn2+ binding site [ion binding]; other site 491916017500 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916017501 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 491916017502 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 491916017503 dimer interface [polypeptide binding]; other site 491916017504 conserved gate region; other site 491916017505 putative PBP binding loops; other site 491916017506 ABC-ATPase subunit interface; other site 491916017507 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916017508 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916017509 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 491916017510 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 491916017511 active site 491916017512 non-prolyl cis peptide bond; other site 491916017513 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 491916017514 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491916017515 active site 491916017516 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 491916017517 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 491916017518 Flavin binding site [chemical binding]; other site 491916017519 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 491916017520 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 491916017521 active site 491916017522 dimer interface [polypeptide binding]; other site 491916017523 non-prolyl cis peptide bond; other site 491916017524 insertion regions; other site 491916017525 ypa00054 491916017526 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 491916017527 classical (c) SDRs; Region: SDR_c; cd05233 491916017528 NAD(P) binding site [chemical binding]; other site 491916017529 active site 491916017530 short chain dehydrogenase; Provisional; Region: PRK07060 491916017531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916017532 NAD(P) binding site [chemical binding]; other site 491916017533 active site 491916017534 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916017535 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916017536 Walker A/P-loop; other site 491916017537 ATP binding site [chemical binding]; other site 491916017538 Q-loop/lid; other site 491916017539 ABC transporter signature motif; other site 491916017540 Walker B; other site 491916017541 D-loop; other site 491916017542 H-loop/switch region; other site 491916017543 TOBE domain; Region: TOBE_2; pfam08402 491916017544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491916017545 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491916017546 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 491916017547 inhibitor binding site; inhibition site 491916017548 catalytic Zn binding site [ion binding]; other site 491916017549 structural Zn binding site [ion binding]; other site 491916017550 NADP binding site [chemical binding]; other site 491916017551 tetramer interface [polypeptide binding]; other site 491916017552 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 491916017553 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916017554 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 491916017555 putative PBP binding loops; other site 491916017556 dimer interface [polypeptide binding]; other site 491916017557 ABC-ATPase subunit interface; other site 491916017558 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491916017559 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 491916017560 dimer interface [polypeptide binding]; other site 491916017561 conserved gate region; other site 491916017562 putative PBP binding loops; other site 491916017563 ABC-ATPase subunit interface; other site 491916017564 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916017565 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916017566 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916017567 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491916017568 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491916017569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916017570 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916017571 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916017572 Walker A/P-loop; other site 491916017573 ATP binding site [chemical binding]; other site 491916017574 Q-loop/lid; other site 491916017575 ABC transporter signature motif; other site 491916017576 Walker B; other site 491916017577 D-loop; other site 491916017578 H-loop/switch region; other site 491916017579 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916017580 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 491916017581 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916017582 Walker A/P-loop; other site 491916017583 ATP binding site [chemical binding]; other site 491916017584 Q-loop/lid; other site 491916017585 ABC transporter signature motif; other site 491916017586 Walker B; other site 491916017587 D-loop; other site 491916017588 H-loop/switch region; other site 491916017589 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491916017590 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916017591 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 491916017592 dimer interface [polypeptide binding]; other site 491916017593 conserved gate region; other site 491916017594 putative PBP binding loops; other site 491916017595 ABC-ATPase subunit interface; other site 491916017596 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916017597 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 491916017598 dimer interface [polypeptide binding]; other site 491916017599 conserved gate region; other site 491916017600 putative PBP binding loops; other site 491916017601 ABC-ATPase subunit interface; other site 491916017602 ypa00067 491916017603 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 491916017604 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 491916017605 Predicted transcriptional regulator [Transcription]; Region: COG4189 491916017606 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 491916017607 dimerization interface [polypeptide binding]; other site 491916017608 putative DNA binding site [nucleotide binding]; other site 491916017609 putative Zn2+ binding site [ion binding]; other site 491916017610 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 491916017611 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 491916017612 Bacterial transcriptional regulator; Region: IclR; pfam01614 491916017613 Coenzyme A transferase; Region: CoA_trans; cl17247 491916017614 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 491916017615 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 491916017616 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 491916017617 dimer interface [polypeptide binding]; other site 491916017618 active site 491916017619 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491916017620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916017621 Coenzyme A binding pocket [chemical binding]; other site 491916017622 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 491916017623 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 491916017624 putative substrate translocation pore; other site 491916017625 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916017626 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916017627 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916017628 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491916017629 classical (c) SDRs; Region: SDR_c; cd05233 491916017630 NAD(P) binding site [chemical binding]; other site 491916017631 active site 491916017632 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 491916017633 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 491916017634 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 491916017635 active site 491916017636 catalytic site [active] 491916017637 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 491916017638 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 491916017639 active site 491916017640 DNA binding site [nucleotide binding] 491916017641 Int/Topo IB signature motif; other site 491916017642 catalytic residues [active] 491916017643 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 491916017644 nucleotide binding site [chemical binding]; other site 491916017645 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 491916017646 glutathione s-transferase; Provisional; Region: PTZ00057 491916017647 GSH binding site (G-site) [chemical binding]; other site 491916017648 C-terminal domain interface [polypeptide binding]; other site 491916017649 dimer interface [polypeptide binding]; other site 491916017650 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 491916017651 dimer interface [polypeptide binding]; other site 491916017652 N-terminal domain interface [polypeptide binding]; other site 491916017653 substrate binding pocket (H-site) [chemical binding]; other site 491916017654 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 491916017655 PAS fold; Region: PAS_4; pfam08448 491916017656 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 491916017657 GAF domain; Region: GAF; pfam01590 491916017658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491916017659 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 491916017660 dimer interface [polypeptide binding]; other site 491916017661 phosphorylation site [posttranslational modification] 491916017662 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 491916017663 ATP binding site [chemical binding]; other site 491916017664 Mg2+ binding site [ion binding]; other site 491916017665 G-X-G motif; other site 491916017666 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916017667 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 491916017668 active site 491916017669 phosphorylation site [posttranslational modification] 491916017670 intermolecular recognition site; other site 491916017671 dimerization interface [polypeptide binding]; other site 491916017672 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491916017673 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 491916017674 active site 491916017675 phosphorylation site [posttranslational modification] 491916017676 intermolecular recognition site; other site 491916017677 dimerization interface [polypeptide binding]; other site 491916017678 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 491916017679 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 491916017680 Fe-S cluster binding site [ion binding]; other site 491916017681 active site 491916017682 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 491916017683 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 491916017684 putative active site [active] 491916017685 catalytic site [active] 491916017686 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 491916017687 putative active site [active] 491916017688 catalytic site [active] 491916017689 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 491916017690 putative catalytic site [active] 491916017691 putative metal binding site [ion binding]; other site 491916017692 putative phosphate binding site [ion binding]; other site 491916017693 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 491916017694 EF-hand domain pair; Region: EF_hand_5; pfam13499 491916017695 Ca2+ binding site [ion binding]; other site 491916017696 Predicted metal-binding protein [General function prediction only]; Region: COG3019 491916017697 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 491916017698 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 491916017699 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 491916017700 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 491916017701 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 491916017702 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 491916017703 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; cl00859 491916017704 Cytochrome C' Region: Cytochrom_C_2; cl01610 491916017705 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916017706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916017707 DNA-binding site [nucleotide binding]; DNA binding site 491916017708 FCD domain; Region: FCD; pfam07729 491916017709 hypothetical protein; Provisional; Region: PRK05968 491916017710 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 491916017711 homodimer interface [polypeptide binding]; other site 491916017712 substrate-cofactor binding pocket; other site 491916017713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491916017714 catalytic residue [active] 491916017715 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491916017716 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491916017717 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 491916017718 dimer interface [polypeptide binding]; other site 491916017719 conserved gate region; other site 491916017720 putative PBP binding loops; other site 491916017721 ABC-ATPase subunit interface; other site 491916017722 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916017723 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 491916017724 dimer interface [polypeptide binding]; other site 491916017725 conserved gate region; other site 491916017726 putative PBP binding loops; other site 491916017727 ABC-ATPase subunit interface; other site 491916017728 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916017729 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916017730 Walker A/P-loop; other site 491916017731 ATP binding site [chemical binding]; other site 491916017732 Q-loop/lid; other site 491916017733 ABC transporter signature motif; other site 491916017734 Walker B; other site 491916017735 D-loop; other site 491916017736 H-loop/switch region; other site 491916017737 TOBE domain; Region: TOBE_2; pfam08402 491916017738 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 491916017739 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 491916017740 putative DNA binding site [nucleotide binding]; other site 491916017741 putative homodimer interface [polypeptide binding]; other site 491916017742 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 491916017743 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 491916017744 putative DNA binding site [nucleotide binding]; other site 491916017745 putative homodimer interface [polypeptide binding]; other site 491916017746 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 491916017747 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 491916017748 active site 491916017749 DNA binding site [nucleotide binding] 491916017750 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 491916017751 DNA binding site [nucleotide binding] 491916017752 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 491916017753 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 491916017754 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 491916017755 active site 491916017756 DNA binding site [nucleotide binding] 491916017757 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 491916017758 DNA binding site [nucleotide binding] 491916017759 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 491916017760 nucleotide binding site [chemical binding]; other site 491916017761 Epoxide hydrolase N terminus; Region: EHN; pfam06441 491916017762 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491916017763 peptidase T; Region: peptidase-T; TIGR01882 491916017764 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 491916017765 metal binding site [ion binding]; metal-binding site 491916017766 dimer interface [polypeptide binding]; other site 491916017767 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 491916017768 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 491916017769 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 491916017770 Walker A/P-loop; other site 491916017771 ATP binding site [chemical binding]; other site 491916017772 Q-loop/lid; other site 491916017773 ABC transporter signature motif; other site 491916017774 Walker B; other site 491916017775 D-loop; other site 491916017776 H-loop/switch region; other site 491916017777 TOBE-like domain; Region: TOBE_3; pfam12857 491916017778 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 491916017779 dimer interface [polypeptide binding]; other site 491916017780 conserved gate region; other site 491916017781 putative PBP binding loops; other site 491916017782 ABC-ATPase subunit interface; other site 491916017783 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 491916017784 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 491916017785 dimer interface [polypeptide binding]; other site 491916017786 conserved gate region; other site 491916017787 putative PBP binding loops; other site 491916017788 ABC-ATPase subunit interface; other site 491916017789 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 491916017790 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 491916017791 Porin subfamily; Region: Porin_2; pfam02530 491916017792 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 491916017793 active site 491916017794 phosphorylation site [posttranslational modification] 491916017795 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491916017796 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 491916017797 active site 491916017798 phosphorylation site [posttranslational modification] 491916017799 intermolecular recognition site; other site 491916017800 dimerization interface [polypeptide binding]; other site 491916017801 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 491916017802 DNA binding site [nucleotide binding] 491916017803 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 491916017804 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 491916017805 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 491916017806 Ligand Binding Site [chemical binding]; other site 491916017807 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 491916017808 GAF domain; Region: GAF_3; pfam13492 491916017809 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 491916017810 dimer interface [polypeptide binding]; other site 491916017811 phosphorylation site [posttranslational modification] 491916017812 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 491916017813 ATP binding site [chemical binding]; other site 491916017814 Mg2+ binding site [ion binding]; other site 491916017815 G-X-G motif; other site 491916017816 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 491916017817 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 491916017818 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491916017819 Soluble P-type ATPase [General function prediction only]; Region: COG4087 491916017820 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 491916017821 CopC domain; Region: CopC; pfam04234 491916017822 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 491916017823 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 491916017824 inhibitor binding site; inhibition site 491916017825 catalytic Zn binding site [ion binding]; other site 491916017826 structural Zn binding site [ion binding]; other site 491916017827 NADP binding site [chemical binding]; other site 491916017828 tetramer interface [polypeptide binding]; other site 491916017829 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 491916017830 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 491916017831 mercuric reductase; Validated; Region: PRK06370 491916017832 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916017833 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491916017834 Predicted membrane protein [Function unknown]; Region: COG3918 491916017835 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 491916017836 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 491916017837 FAD binding site [chemical binding]; other site 491916017838 substrate binding pocket [chemical binding]; other site 491916017839 catalytic base [active] 491916017840 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491916017841 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491916017842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916017843 LysR substrate binding domain; Region: LysR_substrate; pfam03466 491916017844 dimerization interface [polypeptide binding]; other site 491916017845 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 491916017846 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 491916017847 putative ligand binding site [chemical binding]; other site 491916017848 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491916017849 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491916017850 Walker A/P-loop; other site 491916017851 ATP binding site [chemical binding]; other site 491916017852 Q-loop/lid; other site 491916017853 ABC transporter signature motif; other site 491916017854 Walker B; other site 491916017855 D-loop; other site 491916017856 H-loop/switch region; other site 491916017857 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 491916017858 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491916017859 Walker A/P-loop; other site 491916017860 ATP binding site [chemical binding]; other site 491916017861 Q-loop/lid; other site 491916017862 ABC transporter signature motif; other site 491916017863 Walker B; other site 491916017864 D-loop; other site 491916017865 H-loop/switch region; other site 491916017866 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 491916017867 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916017868 TM-ABC transporter signature motif; other site 491916017869 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 491916017870 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 491916017871 TM-ABC transporter signature motif; other site 491916017872 choline dehydrogenase; Validated; Region: PRK02106 491916017873 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491916017874 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491916017875 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 491916017876 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 491916017877 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491916017878 Walker A/P-loop; other site 491916017879 ATP binding site [chemical binding]; other site 491916017880 Q-loop/lid; other site 491916017881 ABC transporter signature motif; other site 491916017882 Walker B; other site 491916017883 D-loop; other site 491916017884 H-loop/switch region; other site 491916017885 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 491916017886 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 491916017887 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 491916017888 N- and C-terminal domain interface [polypeptide binding]; other site 491916017889 putative active site [active] 491916017890 putative MgATP binding site [chemical binding]; other site 491916017891 putative catalytic site [active] 491916017892 metal binding site [ion binding]; metal-binding site 491916017893 putative carbohydrate binding site [chemical binding]; other site 491916017894 Domain of unknown function (DUF718); Region: DUF718; pfam05336 491916017895 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 491916017896 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916017897 TM-ABC transporter signature motif; other site 491916017898 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491916017899 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 491916017900 TM-ABC transporter signature motif; other site 491916017901 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491916017902 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491916017903 Walker A/P-loop; other site 491916017904 ATP binding site [chemical binding]; other site 491916017905 Q-loop/lid; other site 491916017906 ABC transporter signature motif; other site 491916017907 Walker B; other site 491916017908 D-loop; other site 491916017909 H-loop/switch region; other site 491916017910 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491916017911 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 491916017912 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 491916017913 ligand binding site [chemical binding]; other site 491916017914 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491916017915 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 491916017916 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491916017917 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase; Region: RhaD_aldol-ADH; TIGR02632 491916017918 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 491916017919 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 491916017920 putative NAD(P) binding site [chemical binding]; other site 491916017921 active site 491916017922 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 491916017923 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 491916017924 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 491916017925 Uncharacterized conserved protein [Function unknown]; Region: COG2128 491916017926 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 491916017927 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491916017928 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 491916017929 SnoaL-like domain; Region: SnoaL_2; pfam12680 491916017930 Predicted amidohydrolase [General function prediction only]; Region: COG3964 491916017931 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 491916017932 active site 491916017933 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 491916017934 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491916017935 Bacterial transcriptional regulator; Region: IclR; pfam01614 491916017936 short chain dehydrogenase; Provisional; Region: PRK06701 491916017937 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 491916017938 NAD binding site [chemical binding]; other site 491916017939 metal binding site [ion binding]; metal-binding site 491916017940 active site 491916017941 MarR family; Region: MarR_2; cl17246 491916017942 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916017943 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916017944 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 491916017945 hypothetical protein; Provisional; Region: PRK06102 491916017946 Amidase; Region: Amidase; cl11426 491916017947 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 491916017948 Sulfatase; Region: Sulfatase; cl17466 491916017949 choline-sulfatase; Region: chol_sulfatase; TIGR03417 491916017950 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 491916017951 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 491916017952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491916017953 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 491916017954 dimerization interface [polypeptide binding]; other site 491916017955 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 491916017956 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 491916017957 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916017958 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916017959 Walker A/P-loop; other site 491916017960 ATP binding site [chemical binding]; other site 491916017961 Q-loop/lid; other site 491916017962 ABC transporter signature motif; other site 491916017963 Walker B; other site 491916017964 D-loop; other site 491916017965 H-loop/switch region; other site 491916017966 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 491916017967 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491916017968 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916017969 Walker A/P-loop; other site 491916017970 ATP binding site [chemical binding]; other site 491916017971 Q-loop/lid; other site 491916017972 ABC transporter signature motif; other site 491916017973 Walker B; other site 491916017974 D-loop; other site 491916017975 H-loop/switch region; other site 491916017976 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491916017977 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916017978 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 491916017979 putative PBP binding loops; other site 491916017980 ABC-ATPase subunit interface; other site 491916017981 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916017982 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 491916017983 dimer interface [polypeptide binding]; other site 491916017984 conserved gate region; other site 491916017985 putative PBP binding loops; other site 491916017986 ABC-ATPase subunit interface; other site 491916017987 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916017988 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 491916017989 substrate binding site [chemical binding]; other site 491916017990 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 491916017991 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 491916017992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491916017993 Coenzyme A binding pocket [chemical binding]; other site 491916017994 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 491916017995 dimer interface [polypeptide binding]; other site 491916017996 substrate binding site [chemical binding]; other site 491916017997 ATP binding site [chemical binding]; other site 491916017998 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 491916017999 thiamine phosphate binding site [chemical binding]; other site 491916018000 active site 491916018001 pyrophosphate binding site [ion binding]; other site 491916018002 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 491916018003 substrate binding site [chemical binding]; other site 491916018004 multimerization interface [polypeptide binding]; other site 491916018005 ATP binding site [chemical binding]; other site 491916018006 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 491916018007 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491916018008 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 491916018009 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491916018010 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 491916018011 dimer interface [polypeptide binding]; other site 491916018012 conserved gate region; other site 491916018013 putative PBP binding loops; other site 491916018014 ABC-ATPase subunit interface; other site 491916018015 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491916018016 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 491916018017 dimer interface [polypeptide binding]; other site 491916018018 conserved gate region; other site 491916018019 putative PBP binding loops; other site 491916018020 ABC-ATPase subunit interface; other site 491916018021 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 491916018022 homotrimer interaction site [polypeptide binding]; other site 491916018023 putative active site [active] 491916018024 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 491916018025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491916018026 catalytic residue [active] 491916018027 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 491916018028 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916018029 Walker A/P-loop; other site 491916018030 ATP binding site [chemical binding]; other site 491916018031 Q-loop/lid; other site 491916018032 ABC transporter signature motif; other site 491916018033 Walker B; other site 491916018034 D-loop; other site 491916018035 H-loop/switch region; other site 491916018036 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 491916018037 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491916018038 Walker A/P-loop; other site 491916018039 ATP binding site [chemical binding]; other site 491916018040 Q-loop/lid; other site 491916018041 ABC transporter signature motif; other site 491916018042 Walker B; other site 491916018043 D-loop; other site 491916018044 H-loop/switch region; other site 491916018045 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 491916018046 hypothetical protein; Provisional; Region: PRK11171 491916018047 Cupin domain; Region: Cupin_2; pfam07883 491916018048 Cupin domain; Region: Cupin_2; pfam07883 491916018049 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916018050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916018051 DNA-binding site [nucleotide binding]; DNA binding site 491916018052 FCD domain; Region: FCD; pfam07729 491916018053 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916018054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916018055 DNA-binding site [nucleotide binding]; DNA binding site 491916018056 FCD domain; Region: FCD; pfam07729 491916018057 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 491916018058 L-asparaginase II; Region: Asparaginase_II; pfam06089 491916018059 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 491916018060 Aspartase; Region: Aspartase; cd01357 491916018061 active sites [active] 491916018062 tetramer interface [polypeptide binding]; other site 491916018063 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 491916018064 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 491916018065 active site 491916018066 iron coordination sites [ion binding]; other site 491916018067 substrate binding pocket [chemical binding]; other site 491916018068 Uncharacterized conserved protein [Function unknown]; Region: COG2128 491916018069 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 491916018070 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916018071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916018072 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 491916018073 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916018074 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916018075 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 491916018076 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 491916018077 DXD motif; other site 491916018078 Protein of unknown function, DUF606; Region: DUF606; pfam04657 491916018079 Protein of unknown function, DUF606; Region: DUF606; pfam04657 491916018080 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 491916018081 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491916018082 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491916018083 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491916018084 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 491916018085 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 491916018086 dimer interface [polypeptide binding]; other site 491916018087 conserved gate region; other site 491916018088 putative PBP binding loops; other site 491916018089 ABC-ATPase subunit interface; other site 491916018090 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491916018091 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 491916018092 dimer interface [polypeptide binding]; other site 491916018093 conserved gate region; other site 491916018094 ABC-ATPase subunit interface; other site 491916018095 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491916018096 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491916018097 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491916018098 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491916018099 Walker A/P-loop; other site 491916018100 ATP binding site [chemical binding]; other site 491916018101 Q-loop/lid; other site 491916018102 ABC transporter signature motif; other site 491916018103 Walker B; other site 491916018104 D-loop; other site 491916018105 H-loop/switch region; other site 491916018106 TOBE domain; Region: TOBE_2; pfam08402 491916018107 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 491916018108 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 491916018109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491916018110 Walker A/P-loop; other site 491916018111 ATP binding site [chemical binding]; other site 491916018112 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 491916018113 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 491916018114 putative active site [active] 491916018115 putative metal-binding site [ion binding]; other site 491916018116 Cupin domain; Region: Cupin_2; pfam07883 491916018117 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916018118 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916018119 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 491916018120 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 491916018121 dimer interface [polypeptide binding]; other site 491916018122 active site 491916018123 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491916018124 substrate binding site [chemical binding]; other site 491916018125 catalytic residue [active] 491916018126 Uncharacterized conserved protein [Function unknown]; Region: COG5476 491916018127 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 491916018128 MlrC C-terminus; Region: MlrC_C; pfam07171 491916018129 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 491916018130 homotrimer interaction site [polypeptide binding]; other site 491916018131 putative active site [active] 491916018132 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 491916018133 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 491916018134 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 491916018135 putative active site [active] 491916018136 short chain dehydrogenase; Provisional; Region: PRK07074 491916018137 classical (c) SDRs; Region: SDR_c; cd05233 491916018138 NAD(P) binding site [chemical binding]; other site 491916018139 active site 491916018140 sugar efflux transporter; Region: 2A0120; TIGR00899 491916018141 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491916018142 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491916018143 nucleotide binding site [chemical binding]; other site 491916018144 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491916018145 EamA-like transporter family; Region: EamA; pfam00892 491916018146 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491916018147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916018148 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 491916018149 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 491916018150 active site 491916018151 flagellin; Reviewed; Region: PRK12687 491916018152 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491916018153 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491916018154 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 491916018155 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 491916018156 putative substrate translocation pore; other site 491916018157 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 491916018158 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491916018159 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491916018160 DNA-binding site [nucleotide binding]; DNA binding site 491916018161 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 491916018162 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 491916018163 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 491916018164 NADP binding site [chemical binding]; other site 491916018165 homodimer interface [polypeptide binding]; other site 491916018166 active site 491916018167 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 491916018168 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 491916018169 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 491916018170 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 491916018171 active site 491916018172 catalytic site [active] 491916018173 substrate binding site [chemical binding]; other site 491916018174 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 491916018175 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 491916018176 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491916018177 active site 491916018178 catalytic tetrad [active] 491916018179 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 491916018180 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 491916018181 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 491916018182 Switch I; other site 491916018183 Switch II; other site 491916018184 septum formation inhibitor; Reviewed; Region: minC; PRK05177 491916018185 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 491916018186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916018187 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916018188 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491916018189 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491916018190 HlyD family secretion protein; Region: HlyD_3; pfam13437 491916018191 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491916018192 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916018193 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916018194 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 491916018195 short chain dehydrogenase; Provisional; Region: PRK06179 491916018196 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 491916018197 NADP binding site [chemical binding]; other site 491916018198 active site 491916018199 steroid binding site; other site 491916018200 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 491916018201 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 491916018202 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 491916018203 putative active site [active] 491916018204 putative substrate binding site [chemical binding]; other site 491916018205 putative cosubstrate binding site; other site 491916018206 catalytic site [active] 491916018207 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 491916018208 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491916018209 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 491916018210 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 491916018211 active site 491916018212 FMN binding site [chemical binding]; other site 491916018213 substrate binding site [chemical binding]; other site 491916018214 3Fe-4S cluster binding site [ion binding]; other site 491916018215 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 491916018216 domain_subunit interface; other site 491916018217 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 491916018218 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 491916018219 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 491916018220 putative active site [active] 491916018221 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 491916018222 non-specific DNA binding site [nucleotide binding]; other site 491916018223 salt bridge; other site 491916018224 sequence-specific DNA binding site [nucleotide binding]; other site 491916018225 Cupin domain; Region: Cupin_2; pfam07883 491916018226 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 491916018227 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 491916018228 conserved cys residue [active] 491916018229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491916018230 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 491916018231 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491916018232 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 491916018233 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 491916018234 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 491916018235 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491916018236 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 491916018237 RNA ligase; Region: RNA_lig_T4_1; pfam09511 491916018238 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 491916018239 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 491916018240 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 491916018241 Walker A motif; other site 491916018242 ATP binding site [chemical binding]; other site 491916018243 Walker B motif; other site 491916018244 arginine finger; other site 491916018245 TROVE domain; Region: TROVE; pfam05731 491916018246 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 491916018247 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 491916018248 S-adenosylmethionine binding site [chemical binding]; other site 491916018249 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491916018250 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491916018251 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 491916018252 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 491916018253 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 491916018254 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 491916018255 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 491916018256 putative active site pocket [active] 491916018257 metal binding site [ion binding]; metal-binding site 491916018258 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 491916018259 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 491916018260 NAD binding site [chemical binding]; other site 491916018261 homotetramer interface [polypeptide binding]; other site 491916018262 homodimer interface [polypeptide binding]; other site 491916018263 active site 491916018264 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491916018265 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 491916018266 Bacterial transcriptional regulator; Region: IclR; pfam01614 491916018267 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 491916018268 Amidohydrolase; Region: Amidohydro_2; pfam04909 491916018269 Cupin domain; Region: Cupin_2; pfam07883 491916018270 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491916018271 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 491916018272 non-specific DNA binding site [nucleotide binding]; other site 491916018273 salt bridge; other site 491916018274 sequence-specific DNA binding site [nucleotide binding]; other site 491916018275 TfuA-like protein; Region: TfuA; pfam07812 491916018276 Uncharacterized conserved protein [Function unknown]; Region: COG1944 491916018277 YcaO-like family; Region: YcaO; pfam02624 491916018278 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 491916018279 Predicted integral membrane protein [Function unknown]; Region: COG5616 491916018280 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 491916018281 binding surface 491916018282 TPR motif; other site 491916018283 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 491916018284 binding surface 491916018285 TPR repeat; Region: TPR_11; pfam13414 491916018286 TPR motif; other site 491916018287 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 491916018288 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 491916018289 dimerization interface [polypeptide binding]; other site 491916018290 active site 491916018291 L-aspartate oxidase; Provisional; Region: PRK07512 491916018292 L-aspartate oxidase; Provisional; Region: PRK06175 491916018293 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 491916018294 quinolinate synthetase; Provisional; Region: PRK09375 491916018295 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 491916018296 Ketopantoate hydroxymethyltransferase [Coenzyme metabolism]; Region: PanB; COG0413 491916018297 oligomerization interface [polypeptide binding]; other site 491916018298 active site 491916018299 metal binding site [ion binding]; metal-binding site 491916018300 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 491916018301 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491916018302 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 491916018303 [2Fe-2S] cluster binding site [ion binding]; other site 491916018304 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 491916018305 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 491916018306 putative di-iron ligands [ion binding]; other site 491916018307 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491916018308 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491916018309 DNA binding site [nucleotide binding] 491916018310 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 491916018311 putative ligand binding site [chemical binding]; other site 491916018312 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 491916018313 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 491916018314 DNA interaction; other site 491916018315 Metal-binding active site; metal-binding site 491916018316 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 491916018317 active site 491916018318 SAM binding site [chemical binding]; other site 491916018319 homodimer interface [polypeptide binding]; other site 491916018320 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 491916018321 active site 491916018322 putative homodimer interface [polypeptide binding]; other site 491916018323 SAM binding site [chemical binding]; other site 491916018324 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 491916018325 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 491916018326 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 491916018327 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 491916018328 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 491916018329 active site 491916018330 SAM binding site [chemical binding]; other site 491916018331 homodimer interface [polypeptide binding]; other site 491916018332 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 491916018333 active site 491916018334 SAM binding site [chemical binding]; other site 491916018335 homodimer interface [polypeptide binding]; other site 491916018336 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 491916018337 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 491916018338 precorrin-3B synthase; Region: CobG; TIGR02435 491916018339 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 491916018340 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 491916018341 active site 491916018342 SAM binding site [chemical binding]; other site 491916018343 homodimer interface [polypeptide binding]; other site 491916018344 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 491916018345 MerR family regulatory protein; Region: MerR; pfam00376 491916018346 DNA binding residues [nucleotide binding] 491916018347 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 491916018348 P-loop; other site 491916018349 Magnesium ion binding site [ion binding]; other site 491916018350 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 491916018351 Magnesium ion binding site [ion binding]; other site 491916018352 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 491916018353 ParB-like nuclease domain; Region: ParBc; pfam02195 491916018354 replication initiation protein RepC; Provisional; Region: PRK13824 491916018355 Replication protein C N-terminal domain; Region: RP-C; pfam03428 491916018356 Replication protein C C-terminal region; Region: RP-C_C; pfam11800