-- dump date 20140620_024405 -- class Genbank::misc_feature -- table misc_feature_note -- id note 424182000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 424182000002 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 424182000003 active site 424182000004 dimer interface [polypeptide binding]; other site 424182000005 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 424182000006 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 424182000007 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 424182000008 shikimate binding site; other site 424182000009 NAD(P) binding site [chemical binding]; other site 424182000010 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 424182000011 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 424182000012 CoA-binding site [chemical binding]; other site 424182000013 ATP-binding [chemical binding]; other site 424182000014 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 424182000015 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 424182000016 active site 424182000017 catalytic site [active] 424182000018 substrate binding site [chemical binding]; other site 424182000019 preprotein translocase subunit SecB; Validated; Region: PRK05751 424182000020 SecA binding site; other site 424182000021 Preprotein binding site; other site 424182000022 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 424182000023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 424182000024 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 424182000025 MltA specific insert domain; Region: MltA; smart00925 424182000026 3D domain; Region: 3D; pfam06725 424182000027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 424182000028 Smr domain; Region: Smr; pfam01713 424182000029 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182000030 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 424182000031 non-specific DNA binding site [nucleotide binding]; other site 424182000032 salt bridge; other site 424182000033 sequence-specific DNA binding site [nucleotide binding]; other site 424182000034 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 424182000035 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 424182000036 Mg2+ binding site [ion binding]; other site 424182000037 G-X-G motif; other site 424182000038 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 424182000039 anchoring element; other site 424182000040 dimer interface [polypeptide binding]; other site 424182000041 ATP binding site [chemical binding]; other site 424182000042 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 424182000043 active site 424182000044 putative metal-binding site [ion binding]; other site 424182000045 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 424182000046 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 424182000047 putative FMN binding site [chemical binding]; other site 424182000048 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 424182000049 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 424182000050 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 424182000051 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 424182000052 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 424182000053 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 424182000054 active site 424182000055 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 424182000056 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 424182000057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182000058 catalytic residue [active] 424182000059 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 424182000060 substrate binding site [chemical binding]; other site 424182000061 active site 424182000062 catalytic residues [active] 424182000063 heterodimer interface [polypeptide binding]; other site 424182000064 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 424182000065 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 424182000066 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 424182000067 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 424182000068 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 424182000069 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 424182000070 catalytic residues [active] 424182000071 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 424182000072 Part of AAA domain; Region: AAA_19; pfam13245 424182000073 Family description; Region: UvrD_C_2; pfam13538 424182000074 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 424182000075 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 424182000076 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 424182000077 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 424182000078 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 424182000079 Substrate binding site; other site 424182000080 metal-binding site 424182000081 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 424182000082 Phosphotransferase enzyme family; Region: APH; pfam01636 424182000083 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 424182000084 active site 424182000085 ATP binding site [chemical binding]; other site 424182000086 PAS fold; Region: PAS_7; pfam12860 424182000087 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 424182000088 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 424182000089 dimer interface [polypeptide binding]; other site 424182000090 phosphorylation site [posttranslational modification] 424182000091 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 424182000092 ATP binding site [chemical binding]; other site 424182000093 Mg2+ binding site [ion binding]; other site 424182000094 G-X-G motif; other site 424182000095 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 424182000096 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 424182000097 homotetramer interface [polypeptide binding]; other site 424182000098 ligand binding site [chemical binding]; other site 424182000099 catalytic site [active] 424182000100 NAD binding site [chemical binding]; other site 424182000101 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 424182000102 regulatory protein interface [polypeptide binding]; other site 424182000103 active site 424182000104 regulatory phosphorylation site [posttranslational modification]; other site 424182000105 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 424182000106 active pocket/dimerization site; other site 424182000107 active site 424182000108 phosphorylation site [posttranslational modification] 424182000109 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 424182000110 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 424182000111 Hpr binding site; other site 424182000112 active site 424182000113 homohexamer subunit interaction site [polypeptide binding]; other site 424182000114 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 424182000115 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 424182000116 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182000117 HAMP domain; Region: HAMP; pfam00672 424182000118 dimerization interface [polypeptide binding]; other site 424182000119 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 424182000120 dimer interface [polypeptide binding]; other site 424182000121 phosphorylation site [posttranslational modification] 424182000122 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 424182000123 ATP binding site [chemical binding]; other site 424182000124 Mg2+ binding site [ion binding]; other site 424182000125 G-X-G motif; other site 424182000126 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182000127 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 424182000128 active site 424182000129 phosphorylation site [posttranslational modification] 424182000130 intermolecular recognition site; other site 424182000131 dimerization interface [polypeptide binding]; other site 424182000132 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 424182000133 DNA binding site [nucleotide binding] 424182000134 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 424182000135 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 424182000136 active site 424182000137 substrate-binding site [chemical binding]; other site 424182000138 metal-binding site [ion binding] 424182000139 ATP binding site [chemical binding]; other site 424182000140 hypothetical protein; Provisional; Region: PRK09256 424182000141 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 424182000142 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 424182000143 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 424182000144 pantothenate kinase; Provisional; Region: PRK05439 424182000145 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 424182000146 ATP-binding site [chemical binding]; other site 424182000147 CoA-binding site [chemical binding]; other site 424182000148 Mg2+-binding site [ion binding]; other site 424182000149 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 424182000150 metal binding site [ion binding]; metal-binding site 424182000151 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 424182000152 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 424182000153 substrate binding site [chemical binding]; other site 424182000154 glutamase interaction surface [polypeptide binding]; other site 424182000155 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 424182000156 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 424182000157 catalytic residues [active] 424182000158 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 424182000159 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 424182000160 putative active site [active] 424182000161 oxyanion strand; other site 424182000162 catalytic triad [active] 424182000163 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 424182000164 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 424182000165 putative active site pocket [active] 424182000166 4-fold oligomerization interface [polypeptide binding]; other site 424182000167 metal binding residues [ion binding]; metal-binding site 424182000168 3-fold/trimer interface [polypeptide binding]; other site 424182000169 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 424182000170 active site 424182000171 HslU subunit interaction site [polypeptide binding]; other site 424182000172 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 424182000173 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 424182000174 Walker A motif; other site 424182000175 ATP binding site [chemical binding]; other site 424182000176 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 424182000177 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 424182000178 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 424182000179 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 424182000180 active site 424182000181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 424182000182 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182000183 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 424182000184 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 424182000185 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 424182000186 active site 424182000187 phosphorylation site [posttranslational modification] 424182000188 intermolecular recognition site; other site 424182000189 dimerization interface [polypeptide binding]; other site 424182000190 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 424182000191 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182000192 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 424182000193 dimer interface [polypeptide binding]; other site 424182000194 phosphorylation site [posttranslational modification] 424182000195 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 424182000196 ATP binding site [chemical binding]; other site 424182000197 Mg2+ binding site [ion binding]; other site 424182000198 G-X-G motif; other site 424182000199 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 424182000200 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 424182000201 ATP binding site [chemical binding]; other site 424182000202 putative Mg++ binding site [ion binding]; other site 424182000203 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 424182000204 nucleotide binding region [chemical binding]; other site 424182000205 ATP-binding site [chemical binding]; other site 424182000206 Helicase associated domain (HA2); Region: HA2; pfam04408 424182000207 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 424182000208 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 424182000209 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 424182000210 ATP binding site [chemical binding]; other site 424182000211 putative Mg++ binding site [ion binding]; other site 424182000212 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 424182000213 nucleotide binding region [chemical binding]; other site 424182000214 ATP-binding site [chemical binding]; other site 424182000215 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 424182000216 HRDC domain; Region: HRDC; pfam00570 424182000217 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 424182000218 non-specific DNA interactions [nucleotide binding]; other site 424182000219 DNA binding site [nucleotide binding] 424182000220 sequence specific DNA binding site [nucleotide binding]; other site 424182000221 putative cAMP binding site [chemical binding]; other site 424182000222 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 424182000223 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 424182000224 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 424182000225 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182000226 ligand binding site [chemical binding]; other site 424182000227 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182000228 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 424182000229 TM-ABC transporter signature motif; other site 424182000230 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182000231 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182000232 Walker A/P-loop; other site 424182000233 ATP binding site [chemical binding]; other site 424182000234 Q-loop/lid; other site 424182000235 ABC transporter signature motif; other site 424182000236 Walker B; other site 424182000237 D-loop; other site 424182000238 H-loop/switch region; other site 424182000239 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 424182000240 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 424182000241 active site 424182000242 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 424182000243 catalytic residues [active] 424182000244 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 424182000245 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 424182000246 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 424182000247 Class I ribonucleotide reductase; Region: RNR_I; cd01679 424182000248 active site 424182000249 dimer interface [polypeptide binding]; other site 424182000250 catalytic residues [active] 424182000251 effector binding site; other site 424182000252 R2 peptide binding site; other site 424182000253 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 424182000254 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 424182000255 dimer interface [polypeptide binding]; other site 424182000256 putative radical transfer pathway; other site 424182000257 diiron center [ion binding]; other site 424182000258 tyrosyl radical; other site 424182000259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 424182000260 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 424182000261 nucleophilic elbow; other site 424182000262 catalytic triad; other site 424182000263 recombination protein F; Reviewed; Region: recF; PRK00064 424182000264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182000265 Walker A/P-loop; other site 424182000266 ATP binding site [chemical binding]; other site 424182000267 Q-loop/lid; other site 424182000268 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182000269 ABC transporter signature motif; other site 424182000270 Walker B; other site 424182000271 D-loop; other site 424182000272 H-loop/switch region; other site 424182000273 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 424182000274 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 424182000275 ATP binding site [chemical binding]; other site 424182000276 substrate interface [chemical binding]; other site 424182000277 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182000278 Coenzyme A binding pocket [chemical binding]; other site 424182000279 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 424182000280 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 424182000281 dimerization interface [polypeptide binding]; other site 424182000282 ligand binding site [chemical binding]; other site 424182000283 NADP binding site [chemical binding]; other site 424182000284 catalytic site [active] 424182000285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 424182000286 Bacterial SH3 domain; Region: SH3_4; pfam06347 424182000287 Bacterial SH3 domain; Region: SH3_4; pfam06347 424182000288 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 424182000289 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182000290 substrate binding site [chemical binding]; other site 424182000291 ATP binding site [chemical binding]; other site 424182000292 Predicted permeases [General function prediction only]; Region: COG0679 424182000293 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 424182000294 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 424182000295 S-adenosylmethionine binding site [chemical binding]; other site 424182000296 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 424182000297 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 424182000298 RNase E interface [polypeptide binding]; other site 424182000299 trimer interface [polypeptide binding]; other site 424182000300 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 424182000301 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 424182000302 RNase E interface [polypeptide binding]; other site 424182000303 trimer interface [polypeptide binding]; other site 424182000304 active site 424182000305 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 424182000306 putative nucleic acid binding region [nucleotide binding]; other site 424182000307 G-X-X-G motif; other site 424182000308 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 424182000309 RNA binding site [nucleotide binding]; other site 424182000310 domain interface; other site 424182000311 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 424182000312 16S/18S rRNA binding site [nucleotide binding]; other site 424182000313 S13e-L30e interaction site [polypeptide binding]; other site 424182000314 25S rRNA binding site [nucleotide binding]; other site 424182000315 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 424182000316 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 424182000317 RNA binding site [nucleotide binding]; other site 424182000318 active site 424182000319 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 424182000320 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 424182000321 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 424182000322 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 424182000323 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 424182000324 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 424182000325 G1 box; other site 424182000326 putative GEF interaction site [polypeptide binding]; other site 424182000327 GTP/Mg2+ binding site [chemical binding]; other site 424182000328 Switch I region; other site 424182000329 G2 box; other site 424182000330 G3 box; other site 424182000331 Switch II region; other site 424182000332 G4 box; other site 424182000333 G5 box; other site 424182000334 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 424182000335 Translation-initiation factor 2; Region: IF-2; pfam11987 424182000336 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 424182000337 hypothetical protein; Provisional; Region: PRK09190 424182000338 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 424182000339 putative RNA binding cleft [nucleotide binding]; other site 424182000340 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 424182000341 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 424182000342 NusA N-terminal domain; Region: NusA_N; pfam08529 424182000343 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 424182000344 RNA binding site [nucleotide binding]; other site 424182000345 homodimer interface [polypeptide binding]; other site 424182000346 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 424182000347 G-X-X-G motif; other site 424182000348 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 424182000349 G-X-X-G motif; other site 424182000350 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 424182000351 ribosome maturation protein RimP; Reviewed; Region: PRK00092 424182000352 Sm and related proteins; Region: Sm_like; cl00259 424182000353 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 424182000354 putative oligomer interface [polypeptide binding]; other site 424182000355 putative RNA binding site [nucleotide binding]; other site 424182000356 Transmembrane secretion effector; Region: MFS_3; pfam05977 424182000357 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 424182000358 putative substrate translocation pore; other site 424182000359 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 424182000360 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 424182000361 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182000362 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182000363 recombination protein RecR; Reviewed; Region: recR; PRK00076 424182000364 RecR protein; Region: RecR; pfam02132 424182000365 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 424182000366 putative active site [active] 424182000367 putative metal-binding site [ion binding]; other site 424182000368 tetramer interface [polypeptide binding]; other site 424182000369 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 424182000370 MOSC domain; Region: MOSC; pfam03473 424182000371 hypothetical protein; Validated; Region: PRK00153 424182000372 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 424182000373 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 424182000374 Walker A motif; other site 424182000375 ATP binding site [chemical binding]; other site 424182000376 Walker B motif; other site 424182000377 arginine finger; other site 424182000378 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 424182000379 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 424182000380 HIT domain; Region: HIT; pfam01230 424182000381 nucleotide binding site/active site [active] 424182000382 HIT family signature motif; other site 424182000383 catalytic residue [active] 424182000384 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 424182000385 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 424182000386 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 424182000387 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 424182000388 putative NADH binding site [chemical binding]; other site 424182000389 putative active site [active] 424182000390 nudix motif; other site 424182000391 putative metal binding site [ion binding]; other site 424182000392 prephenate dehydratase; Provisional; Region: PRK11899 424182000393 Prephenate dehydratase; Region: PDT; pfam00800 424182000394 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 424182000395 putative L-Phe binding site [chemical binding]; other site 424182000396 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 424182000397 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 424182000398 Ligand binding site; other site 424182000399 oligomer interface; other site 424182000400 Cytochrome c2 [Energy production and conversion]; Region: COG3474 424182000401 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 424182000402 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 424182000403 Transglycosylase; Region: Transgly; pfam00912 424182000404 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 424182000405 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 424182000406 putative deacylase active site [active] 424182000407 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 424182000408 DNA-binding site [nucleotide binding]; DNA binding site 424182000409 RNA-binding motif; other site 424182000410 hypothetical protein; Validated; Region: PRK09104 424182000411 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 424182000412 metal binding site [ion binding]; metal-binding site 424182000413 putative dimer interface [polypeptide binding]; other site 424182000414 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182000415 MarR family; Region: MarR; pfam01047 424182000416 5'-3' exonuclease; Region: 53EXOc; smart00475 424182000417 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 424182000418 active site 424182000419 metal binding site 1 [ion binding]; metal-binding site 424182000420 putative 5' ssDNA interaction site; other site 424182000421 metal binding site 3; metal-binding site 424182000422 metal binding site 2 [ion binding]; metal-binding site 424182000423 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 424182000424 putative DNA binding site [nucleotide binding]; other site 424182000425 putative metal binding site [ion binding]; other site 424182000426 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 424182000427 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 424182000428 active site 424182000429 catalytic site [active] 424182000430 substrate binding site [chemical binding]; other site 424182000431 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 424182000432 active site 424182000433 DNA binding site [nucleotide binding] 424182000434 catalytic site [active] 424182000435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 424182000436 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 424182000437 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 424182000438 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 424182000439 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 424182000440 dimer interface [polypeptide binding]; other site 424182000441 phosphorylation site [posttranslational modification] 424182000442 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 424182000443 ATP binding site [chemical binding]; other site 424182000444 Mg2+ binding site [ion binding]; other site 424182000445 G-X-G motif; other site 424182000446 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 424182000447 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 424182000448 active site 424182000449 phosphorylation site [posttranslational modification] 424182000450 intermolecular recognition site; other site 424182000451 dimerization interface [polypeptide binding]; other site 424182000452 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 424182000453 Walker A motif; other site 424182000454 ATP binding site [chemical binding]; other site 424182000455 Walker B motif; other site 424182000456 arginine finger; other site 424182000457 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 424182000458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 424182000459 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 424182000460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 424182000461 hypothetical protein; Provisional; Region: PRK00736 424182000462 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 424182000463 chaperone protein DnaJ; Provisional; Region: PRK10767 424182000464 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 424182000465 HSP70 interaction site [polypeptide binding]; other site 424182000466 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 424182000467 substrate binding site [polypeptide binding]; other site 424182000468 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 424182000469 Zn binding sites [ion binding]; other site 424182000470 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 424182000471 dimer interface [polypeptide binding]; other site 424182000472 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 424182000473 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 424182000474 nucleotide binding site [chemical binding]; other site 424182000475 NEF interaction site [polypeptide binding]; other site 424182000476 SBD interface [polypeptide binding]; other site 424182000477 methionine sulfoxide reductase A; Provisional; Region: PRK00058 424182000478 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 424182000479 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 424182000480 ligand binding site [chemical binding]; other site 424182000481 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 424182000482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182000483 Walker A/P-loop; other site 424182000484 ATP binding site [chemical binding]; other site 424182000485 Q-loop/lid; other site 424182000486 ABC transporter signature motif; other site 424182000487 Walker B; other site 424182000488 D-loop; other site 424182000489 H-loop/switch region; other site 424182000490 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182000491 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182000492 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 424182000493 TM-ABC transporter signature motif; other site 424182000494 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182000495 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 424182000496 TM-ABC transporter signature motif; other site 424182000497 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 424182000498 active site 424182000499 catalytic motif [active] 424182000500 Zn binding site [ion binding]; other site 424182000501 purine nucleoside phosphorylase; Provisional; Region: PRK08202 424182000502 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 424182000503 intersubunit interface [polypeptide binding]; other site 424182000504 active site 424182000505 catalytic residue [active] 424182000506 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 424182000507 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 424182000508 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 424182000509 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 424182000510 Predicted aspartyl protease [General function prediction only]; Region: COG3577 424182000511 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 424182000512 catalytic motif [active] 424182000513 Catalytic residue [active] 424182000514 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 424182000515 active site 424182000516 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 424182000517 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 424182000518 active site 424182000519 purine riboside binding site [chemical binding]; other site 424182000520 phosphopentomutase; Provisional; Region: PRK05362 424182000521 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 424182000522 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 424182000523 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 424182000524 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 424182000525 Subunit I/III interface [polypeptide binding]; other site 424182000526 Subunit III/IV interface [polypeptide binding]; other site 424182000527 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 424182000528 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 424182000529 D-pathway; other site 424182000530 Putative ubiquinol binding site [chemical binding]; other site 424182000531 Low-spin heme (heme b) binding site [chemical binding]; other site 424182000532 Putative water exit pathway; other site 424182000533 Binuclear center (heme o3/CuB) [ion binding]; other site 424182000534 K-pathway; other site 424182000535 Putative proton exit pathway; other site 424182000536 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 424182000537 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 424182000538 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 424182000539 metabolite-proton symporter; Region: 2A0106; TIGR00883 424182000540 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 424182000541 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 424182000542 active site 424182000543 dimer interface [polypeptide binding]; other site 424182000544 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 424182000545 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 424182000546 active site 424182000547 FMN binding site [chemical binding]; other site 424182000548 substrate binding site [chemical binding]; other site 424182000549 3Fe-4S cluster binding site [ion binding]; other site 424182000550 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; cl00239 424182000551 domain_subunit interface; other site 424182000552 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 424182000553 Flavodoxin; Region: Flavodoxin_1; pfam00258 424182000554 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 424182000555 FAD binding pocket [chemical binding]; other site 424182000556 FAD binding motif [chemical binding]; other site 424182000557 catalytic residues [active] 424182000558 NAD binding pocket [chemical binding]; other site 424182000559 phosphate binding motif [ion binding]; other site 424182000560 beta-alpha-beta structure motif; other site 424182000561 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 424182000562 TadE-like protein; Region: TadE; pfam07811 424182000563 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 424182000564 TadE-like protein; Region: TadE; pfam07811 424182000565 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 424182000566 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 424182000567 NAD binding site [chemical binding]; other site 424182000568 homotetramer interface [polypeptide binding]; other site 424182000569 homodimer interface [polypeptide binding]; other site 424182000570 substrate binding site [chemical binding]; other site 424182000571 active site 424182000572 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 424182000573 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 424182000574 dimer interface [polypeptide binding]; other site 424182000575 active site 424182000576 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 424182000577 active site 1 [active] 424182000578 dimer interface [polypeptide binding]; other site 424182000579 active site 2 [active] 424182000580 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 424182000581 metal binding site 2 [ion binding]; metal-binding site 424182000582 putative DNA binding helix; other site 424182000583 metal binding site 1 [ion binding]; metal-binding site 424182000584 dimer interface [polypeptide binding]; other site 424182000585 Predicted membrane protein [Function unknown]; Region: COG2860 424182000586 UPF0126 domain; Region: UPF0126; pfam03458 424182000587 UPF0126 domain; Region: UPF0126; pfam03458 424182000588 Predicted membrane protein [Function unknown]; Region: COG3619 424182000589 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 424182000590 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 424182000591 substrate binding pocket [chemical binding]; other site 424182000592 membrane-bound complex binding site; other site 424182000593 hinge residues; other site 424182000594 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182000595 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182000596 dimer interface [polypeptide binding]; other site 424182000597 conserved gate region; other site 424182000598 putative PBP binding loops; other site 424182000599 ABC-ATPase subunit interface; other site 424182000600 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 424182000601 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182000602 Walker A/P-loop; other site 424182000603 ATP binding site [chemical binding]; other site 424182000604 Q-loop/lid; other site 424182000605 ABC transporter signature motif; other site 424182000606 Walker B; other site 424182000607 D-loop; other site 424182000608 H-loop/switch region; other site 424182000609 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 424182000610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182000611 DNA-binding site [nucleotide binding]; DNA binding site 424182000612 UTRA domain; Region: UTRA; pfam07702 424182000613 tonB-system energizer ExbB; Region: exbB; TIGR02797 424182000614 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 424182000615 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 424182000616 TonB C terminal; Region: TonB_2; pfam13103 424182000617 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 424182000618 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 424182000619 DNA binding residues [nucleotide binding] 424182000620 dimerization interface [polypeptide binding]; other site 424182000621 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 424182000622 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182000623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182000624 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 424182000625 Guanylate kinase; Region: Guanylate_kin; pfam00625 424182000626 active site 424182000627 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 424182000628 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 424182000629 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 424182000630 active site 424182000631 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 424182000632 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 424182000633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182000634 dimer interface [polypeptide binding]; other site 424182000635 conserved gate region; other site 424182000636 ABC-ATPase subunit interface; other site 424182000637 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 424182000638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182000639 dimer interface [polypeptide binding]; other site 424182000640 conserved gate region; other site 424182000641 ABC-ATPase subunit interface; other site 424182000642 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 424182000643 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 424182000644 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 424182000645 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 424182000646 Walker A/P-loop; other site 424182000647 ATP binding site [chemical binding]; other site 424182000648 Q-loop/lid; other site 424182000649 ABC transporter signature motif; other site 424182000650 Walker B; other site 424182000651 D-loop; other site 424182000652 H-loop/switch region; other site 424182000653 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 424182000654 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 424182000655 trimer interface [polypeptide binding]; other site 424182000656 active site 424182000657 substrate binding site [chemical binding]; other site 424182000658 CoA binding site [chemical binding]; other site 424182000659 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 424182000660 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182000661 Walker A/P-loop; other site 424182000662 ATP binding site [chemical binding]; other site 424182000663 Q-loop/lid; other site 424182000664 ABC transporter signature motif; other site 424182000665 Walker B; other site 424182000666 D-loop; other site 424182000667 H-loop/switch region; other site 424182000668 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 424182000669 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182000670 Walker A/P-loop; other site 424182000671 ATP binding site [chemical binding]; other site 424182000672 Q-loop/lid; other site 424182000673 ABC transporter signature motif; other site 424182000674 Walker B; other site 424182000675 D-loop; other site 424182000676 H-loop/switch region; other site 424182000677 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182000678 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 424182000679 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 424182000680 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 424182000681 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 424182000682 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 424182000683 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182000684 DNA-binding site [nucleotide binding]; DNA binding site 424182000685 UTRA domain; Region: UTRA; pfam07702 424182000686 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 424182000687 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 424182000688 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 424182000689 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 424182000690 glucokinase, proteobacterial type; Region: glk; TIGR00749 424182000691 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 424182000692 active site 424182000693 dimer interfaces [polypeptide binding]; other site 424182000694 catalytic residues [active] 424182000695 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 424182000696 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 424182000697 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 424182000698 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 424182000699 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 424182000700 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182000701 dimer interface [polypeptide binding]; other site 424182000702 conserved gate region; other site 424182000703 putative PBP binding loops; other site 424182000704 ABC-ATPase subunit interface; other site 424182000705 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 424182000706 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182000707 dimer interface [polypeptide binding]; other site 424182000708 conserved gate region; other site 424182000709 putative PBP binding loops; other site 424182000710 ABC-ATPase subunit interface; other site 424182000711 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 424182000712 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182000713 Walker A/P-loop; other site 424182000714 ATP binding site [chemical binding]; other site 424182000715 Q-loop/lid; other site 424182000716 ABC transporter signature motif; other site 424182000717 Walker B; other site 424182000718 D-loop; other site 424182000719 H-loop/switch region; other site 424182000720 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182000721 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182000722 Walker A/P-loop; other site 424182000723 ATP binding site [chemical binding]; other site 424182000724 Q-loop/lid; other site 424182000725 ABC transporter signature motif; other site 424182000726 Walker B; other site 424182000727 D-loop; other site 424182000728 H-loop/switch region; other site 424182000729 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182000730 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182000731 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 424182000732 hydroxyglutarate oxidase; Provisional; Region: PRK11728 424182000733 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 424182000734 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 424182000735 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 424182000736 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182000737 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 424182000738 ATP-binding site [chemical binding]; other site 424182000739 Gluconate-6-phosphate binding site [chemical binding]; other site 424182000740 Shikimate kinase; Region: SKI; pfam01202 424182000741 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 424182000742 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 424182000743 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 424182000744 Walker A/P-loop; other site 424182000745 ATP binding site [chemical binding]; other site 424182000746 Q-loop/lid; other site 424182000747 ABC transporter signature motif; other site 424182000748 Walker B; other site 424182000749 D-loop; other site 424182000750 H-loop/switch region; other site 424182000751 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182000752 dimer interface [polypeptide binding]; other site 424182000753 conserved gate region; other site 424182000754 ABC-ATPase subunit interface; other site 424182000755 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 424182000756 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 424182000757 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 424182000758 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 424182000759 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 424182000760 Rrf2 family protein; Region: rrf2_super; TIGR00738 424182000761 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 424182000762 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182000763 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 424182000764 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 424182000765 tetrameric interface [polypeptide binding]; other site 424182000766 NAD binding site [chemical binding]; other site 424182000767 catalytic residues [active] 424182000768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182000769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182000770 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 424182000771 dimerization interface [polypeptide binding]; other site 424182000772 EamA-like transporter family; Region: EamA; pfam00892 424182000773 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182000774 EamA-like transporter family; Region: EamA; cl17759 424182000775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 424182000776 Transcriptional regulators [Transcription]; Region: MarR; COG1846 424182000777 MarR family; Region: MarR; pfam01047 424182000778 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 424182000779 NlpC/P60 family; Region: NLPC_P60; cl17555 424182000780 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 424182000781 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 424182000782 active site 424182000783 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 424182000784 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 424182000785 interface (dimer of trimers) [polypeptide binding]; other site 424182000786 Substrate-binding/catalytic site; other site 424182000787 Zn-binding sites [ion binding]; other site 424182000788 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 424182000789 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 424182000790 binding surface 424182000791 TPR motif; other site 424182000792 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 424182000793 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 424182000794 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 424182000795 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 424182000796 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 424182000797 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 424182000798 ATP binding site [chemical binding]; other site 424182000799 Walker A motif; other site 424182000800 hexamer interface [polypeptide binding]; other site 424182000801 Walker B motif; other site 424182000802 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 424182000803 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 424182000804 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 424182000805 Type IV pili component [Cell motility and secretion]; Region: COG5461 424182000806 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 424182000807 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 424182000808 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 424182000809 BON domain; Region: BON; pfam04972 424182000810 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 424182000811 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 424182000812 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 424182000813 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 424182000814 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 424182000815 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 424182000816 Rdx family; Region: Rdx; cl01407 424182000817 Predicted membrane protein [Function unknown]; Region: COG2259 424182000818 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 424182000819 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 424182000820 catalytic triad [active] 424182000821 Uncharacterized conserved protein [Function unknown]; Region: COG3422 424182000822 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 424182000823 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 424182000824 active site 424182000825 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182000826 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 424182000827 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182000828 DNA-binding site [nucleotide binding]; DNA binding site 424182000829 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 424182000830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182000831 homodimer interface [polypeptide binding]; other site 424182000832 catalytic residue [active] 424182000833 Predicted transcriptional regulator [Transcription]; Region: COG1959 424182000834 Transcriptional regulator; Region: Rrf2; pfam02082 424182000835 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 424182000836 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 424182000837 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 424182000838 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182000839 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182000840 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 424182000841 GTP-binding protein LepA; Provisional; Region: PRK05433 424182000842 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 424182000843 G1 box; other site 424182000844 putative GEF interaction site [polypeptide binding]; other site 424182000845 GTP/Mg2+ binding site [chemical binding]; other site 424182000846 Switch I region; other site 424182000847 G2 box; other site 424182000848 G3 box; other site 424182000849 Switch II region; other site 424182000850 G4 box; other site 424182000851 G5 box; other site 424182000852 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 424182000853 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 424182000854 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 424182000855 Predicted amidohydrolase [General function prediction only]; Region: COG0388 424182000856 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 424182000857 putative active site [active] 424182000858 catalytic triad [active] 424182000859 putative dimer interface [polypeptide binding]; other site 424182000860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182000861 Coenzyme A binding pocket [chemical binding]; other site 424182000862 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 424182000863 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182000864 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 424182000865 non-specific DNA binding site [nucleotide binding]; other site 424182000866 salt bridge; other site 424182000867 sequence-specific DNA binding site [nucleotide binding]; other site 424182000868 Cupin domain; Region: Cupin_2; pfam07883 424182000869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182000870 Coenzyme A binding pocket [chemical binding]; other site 424182000871 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 424182000872 Helix-turn-helix domain; Region: HTH_18; pfam12833 424182000873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182000874 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 424182000875 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 424182000876 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 424182000877 apolar tunnel; other site 424182000878 heme binding site [chemical binding]; other site 424182000879 dimerization interface [polypeptide binding]; other site 424182000880 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 424182000881 diiron binding motif [ion binding]; other site 424182000882 Uncharacterized conserved protein [Function unknown]; Region: COG1633 424182000883 CCC1-related protein family; Region: CCC1_like_1; cd02437 424182000884 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 424182000885 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 424182000886 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182000887 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 424182000888 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 424182000889 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 424182000890 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 424182000891 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 424182000892 23S rRNA binding site [nucleotide binding]; other site 424182000893 L21 binding site [polypeptide binding]; other site 424182000894 L13 binding site [polypeptide binding]; other site 424182000895 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 424182000896 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 424182000897 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 424182000898 dimer interface [polypeptide binding]; other site 424182000899 motif 1; other site 424182000900 active site 424182000901 motif 2; other site 424182000902 motif 3; other site 424182000903 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 424182000904 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 424182000905 putative tRNA-binding site [nucleotide binding]; other site 424182000906 B3/4 domain; Region: B3_4; pfam03483 424182000907 tRNA synthetase B5 domain; Region: B5; smart00874 424182000908 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 424182000909 dimer interface [polypeptide binding]; other site 424182000910 motif 1; other site 424182000911 motif 3; other site 424182000912 motif 2; other site 424182000913 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 424182000914 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 424182000915 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182000916 active site 424182000917 catalytic tetrad [active] 424182000918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182000919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182000920 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 424182000921 putative effector binding pocket; other site 424182000922 putative dimerization interface [polypeptide binding]; other site 424182000923 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182000924 Coenzyme A binding pocket [chemical binding]; other site 424182000925 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 424182000926 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182000927 active site 424182000928 catalytic tetrad [active] 424182000929 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 424182000930 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 424182000931 conserved cys residue [active] 424182000932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182000933 Isochorismatase family; Region: Isochorismatase; pfam00857 424182000934 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 424182000935 catalytic triad [active] 424182000936 conserved cis-peptide bond; other site 424182000937 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182000938 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182000939 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182000940 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 424182000941 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 424182000942 generic binding surface II; other site 424182000943 generic binding surface I; other site 424182000944 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182000945 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 424182000946 active site pocket [active] 424182000947 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182000948 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182000949 DNA-binding site [nucleotide binding]; DNA binding site 424182000950 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182000951 MarR family; Region: MarR_2; cl17246 424182000952 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182000953 EamA-like transporter family; Region: EamA; pfam00892 424182000954 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 424182000955 EamA-like transporter family; Region: EamA; pfam00892 424182000956 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 424182000957 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 424182000958 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 424182000959 putative deacylase active site [active] 424182000960 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 424182000961 ArsC family; Region: ArsC; pfam03960 424182000962 putative catalytic residues [active] 424182000963 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 424182000964 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 424182000965 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182000966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182000967 GMP synthase; Reviewed; Region: guaA; PRK00074 424182000968 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 424182000969 AMP/PPi binding site [chemical binding]; other site 424182000970 candidate oxyanion hole; other site 424182000971 catalytic triad [active] 424182000972 potential glutamine specificity residues [chemical binding]; other site 424182000973 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 424182000974 ATP Binding subdomain [chemical binding]; other site 424182000975 Ligand Binding sites [chemical binding]; other site 424182000976 Dimerization subdomain; other site 424182000977 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 424182000978 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 424182000979 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 424182000980 CoenzymeA binding site [chemical binding]; other site 424182000981 subunit interaction site [polypeptide binding]; other site 424182000982 PHB binding site; other site 424182000983 TspO/MBR family; Region: TspO_MBR; pfam03073 424182000984 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 424182000985 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG3489 424182000986 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 424182000987 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 424182000988 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 424182000989 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 424182000990 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 424182000991 S-adenosylmethionine binding site [chemical binding]; other site 424182000992 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 424182000993 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 424182000994 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182000995 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 424182000996 putative NAD(P) binding site [chemical binding]; other site 424182000997 epoxyqueuosine reductase; Region: TIGR00276 424182000998 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 424182000999 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182001000 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 424182001001 C-terminal domain interface [polypeptide binding]; other site 424182001002 GSH binding site (G-site) [chemical binding]; other site 424182001003 dimer interface [polypeptide binding]; other site 424182001004 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 424182001005 N-terminal domain interface [polypeptide binding]; other site 424182001006 dimer interface [polypeptide binding]; other site 424182001007 substrate binding pocket (H-site) [chemical binding]; other site 424182001008 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 424182001009 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 424182001010 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 424182001011 putative NAD(P) binding site [chemical binding]; other site 424182001012 active site 424182001013 Uncharacterized conserved protein [Function unknown]; Region: COG5470 424182001014 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 424182001015 active site 424182001016 dimer interface [polypeptide binding]; other site 424182001017 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 424182001018 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 424182001019 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 424182001020 S-adenosylmethionine binding site [chemical binding]; other site 424182001021 DNA polymerase III subunit beta; Validated; Region: PRK05643 424182001022 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 424182001023 putative DNA binding surface [nucleotide binding]; other site 424182001024 dimer interface [polypeptide binding]; other site 424182001025 beta-clamp/clamp loader binding surface; other site 424182001026 beta-clamp/translesion DNA polymerase binding surface; other site 424182001027 Predicted methyltransferases [General function prediction only]; Region: COG0313 424182001028 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 424182001029 putative SAM binding site [chemical binding]; other site 424182001030 putative homodimer interface [polypeptide binding]; other site 424182001031 hypothetical protein; Reviewed; Region: PRK12497 424182001032 maltose O-acetyltransferase; Provisional; Region: PRK10092 424182001033 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 424182001034 active site 424182001035 substrate binding site [chemical binding]; other site 424182001036 trimer interface [polypeptide binding]; other site 424182001037 CoA binding site [chemical binding]; other site 424182001038 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182001039 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182001040 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182001041 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001042 dimer interface [polypeptide binding]; other site 424182001043 putative PBP binding loops; other site 424182001044 ABC-ATPase subunit interface; other site 424182001045 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182001046 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001047 dimer interface [polypeptide binding]; other site 424182001048 conserved gate region; other site 424182001049 ABC-ATPase subunit interface; other site 424182001050 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182001051 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182001052 Walker A/P-loop; other site 424182001053 ATP binding site [chemical binding]; other site 424182001054 Q-loop/lid; other site 424182001055 ABC transporter signature motif; other site 424182001056 Walker B; other site 424182001057 D-loop; other site 424182001058 H-loop/switch region; other site 424182001059 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 424182001060 glutathione synthetase; Provisional; Region: PRK05246 424182001061 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 424182001062 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 424182001063 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 424182001064 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 424182001065 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 424182001066 Walker A motif; other site 424182001067 ATP binding site [chemical binding]; other site 424182001068 Walker B motif; other site 424182001069 arginine finger; other site 424182001070 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 424182001071 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 424182001072 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 424182001073 dimer interface [polypeptide binding]; other site 424182001074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182001075 catalytic residue [active] 424182001076 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182001077 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 424182001078 trimer interface [polypeptide binding]; other site 424182001079 active site 424182001080 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 424182001081 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 424182001082 G1 box; other site 424182001083 putative GEF interaction site [polypeptide binding]; other site 424182001084 GTP/Mg2+ binding site [chemical binding]; other site 424182001085 Switch I region; other site 424182001086 G2 box; other site 424182001087 G3 box; other site 424182001088 Switch II region; other site 424182001089 G4 box; other site 424182001090 G5 box; other site 424182001091 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 424182001092 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 424182001093 Flavoprotein; Region: Flavoprotein; pfam02441 424182001094 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 424182001095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 424182001096 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 424182001097 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 424182001098 ABC1 family; Region: ABC1; cl17513 424182001099 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 424182001100 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 424182001101 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 424182001102 S-adenosylmethionine binding site [chemical binding]; other site 424182001103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 424182001104 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 424182001105 DNA binding site [nucleotide binding] 424182001106 catalytic residue [active] 424182001107 H2TH interface [polypeptide binding]; other site 424182001108 putative catalytic residues [active] 424182001109 turnover-facilitating residue; other site 424182001110 intercalation triad [nucleotide binding]; other site 424182001111 8OG recognition residue [nucleotide binding]; other site 424182001112 putative reading head residues; other site 424182001113 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 424182001114 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 424182001115 enoyl-CoA hydratase; Provisional; Region: PRK05862 424182001116 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 424182001117 substrate binding site [chemical binding]; other site 424182001118 oxyanion hole (OAH) forming residues; other site 424182001119 trimer interface [polypeptide binding]; other site 424182001120 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 424182001121 DnaA N-terminal domain; Region: DnaA_N; pfam11638 424182001122 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 424182001123 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 424182001124 Walker A motif; other site 424182001125 ATP binding site [chemical binding]; other site 424182001126 Walker B motif; other site 424182001127 arginine finger; other site 424182001128 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 424182001129 DnaA box-binding interface [nucleotide binding]; other site 424182001130 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 424182001131 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 424182001132 FeS/SAM binding site; other site 424182001133 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 424182001134 active site 424182001135 dimerization interface [polypeptide binding]; other site 424182001136 ribonuclease PH; Reviewed; Region: rph; PRK00173 424182001137 Ribonuclease PH; Region: RNase_PH_bact; cd11362 424182001138 hexamer interface [polypeptide binding]; other site 424182001139 active site 424182001140 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 424182001141 heat shock protein GrpE; Provisional; Region: PRK14141 424182001142 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 424182001143 dimer interface [polypeptide binding]; other site 424182001144 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 424182001145 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 424182001146 active site 424182001147 phosphorylation site [posttranslational modification] 424182001148 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 424182001149 30S subunit binding site; other site 424182001150 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 424182001151 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 424182001152 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 424182001153 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 424182001154 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 424182001155 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 424182001156 Walker A/P-loop; other site 424182001157 ATP binding site [chemical binding]; other site 424182001158 Q-loop/lid; other site 424182001159 ABC transporter signature motif; other site 424182001160 Walker B; other site 424182001161 D-loop; other site 424182001162 H-loop/switch region; other site 424182001163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 424182001164 OstA-like protein; Region: OstA; pfam03968 424182001165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 424182001166 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 424182001167 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 424182001168 tandem repeat interface [polypeptide binding]; other site 424182001169 oligomer interface [polypeptide binding]; other site 424182001170 active site residues [active] 424182001171 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 424182001172 IHF dimer interface [polypeptide binding]; other site 424182001173 IHF - DNA interface [nucleotide binding]; other site 424182001174 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 424182001175 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 424182001176 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 424182001177 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 424182001178 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 424182001179 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 424182001180 lipoprotein signal peptidase; Provisional; Region: PRK14795 424182001181 lipoprotein signal peptidase; Provisional; Region: PRK14787 424182001182 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 424182001183 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 424182001184 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 424182001185 dimer interface [polypeptide binding]; other site 424182001186 phosphorylation site [posttranslational modification] 424182001187 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 424182001188 ATP binding site [chemical binding]; other site 424182001189 Mg2+ binding site [ion binding]; other site 424182001190 G-X-G motif; other site 424182001191 Response regulator receiver domain; Region: Response_reg; pfam00072 424182001192 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 424182001193 active site 424182001194 phosphorylation site [posttranslational modification] 424182001195 intermolecular recognition site; other site 424182001196 dimerization interface [polypeptide binding]; other site 424182001197 Putative hemolysin [General function prediction only]; Region: COG3176 424182001198 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 424182001199 MutS domain I; Region: MutS_I; pfam01624 424182001200 MutS domain II; Region: MutS_II; pfam05188 424182001201 MutS domain III; Region: MutS_III; pfam05192 424182001202 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 424182001203 Walker A/P-loop; other site 424182001204 ATP binding site [chemical binding]; other site 424182001205 Q-loop/lid; other site 424182001206 ABC transporter signature motif; other site 424182001207 Walker B; other site 424182001208 D-loop; other site 424182001209 H-loop/switch region; other site 424182001210 PII uridylyl-transferase; Provisional; Region: PRK05092 424182001211 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 424182001212 metal binding triad; other site 424182001213 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 424182001214 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 424182001215 Zn2+ binding site [ion binding]; other site 424182001216 Mg2+ binding site [ion binding]; other site 424182001217 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 424182001218 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 424182001219 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 424182001220 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 424182001221 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182001222 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 424182001223 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 424182001224 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 424182001225 active site 424182001226 HIGH motif; other site 424182001227 dimer interface [polypeptide binding]; other site 424182001228 KMSKS motif; other site 424182001229 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 424182001230 Ligand Binding Site [chemical binding]; other site 424182001231 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 424182001232 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 424182001233 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 424182001234 Glycoprotease family; Region: Peptidase_M22; pfam00814 424182001235 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 424182001236 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182001237 Coenzyme A binding pocket [chemical binding]; other site 424182001238 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 424182001239 metal binding site 2 [ion binding]; metal-binding site 424182001240 putative DNA binding helix; other site 424182001241 metal binding site 1 [ion binding]; metal-binding site 424182001242 dimer interface [polypeptide binding]; other site 424182001243 structural Zn2+ binding site [ion binding]; other site 424182001244 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 424182001245 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 424182001246 putative acyl-acceptor binding pocket; other site 424182001247 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 424182001248 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 424182001249 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 424182001250 FeS/SAM binding site; other site 424182001251 TRAM domain; Region: TRAM; cl01282 424182001252 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 424182001253 PhoH-like protein; Region: PhoH; pfam02562 424182001254 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 424182001255 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 424182001256 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 424182001257 Transporter associated domain; Region: CorC_HlyC; smart01091 424182001258 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 424182001259 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 424182001260 putative active site [active] 424182001261 catalytic triad [active] 424182001262 putative dimer interface [polypeptide binding]; other site 424182001263 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182001264 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 424182001265 non-specific DNA binding site [nucleotide binding]; other site 424182001266 salt bridge; other site 424182001267 sequence-specific DNA binding site [nucleotide binding]; other site 424182001268 S-adenosylmethionine synthetase; Validated; Region: PRK05250 424182001269 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 424182001270 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 424182001271 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 424182001272 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 424182001273 S-adenosylmethionine binding site [chemical binding]; other site 424182001274 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182001275 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 424182001276 substrate binding site [chemical binding]; other site 424182001277 dimer interface [polypeptide binding]; other site 424182001278 ATP binding site [chemical binding]; other site 424182001279 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 424182001280 RmuC family; Region: RmuC; pfam02646 424182001281 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 424182001282 active site 424182001283 catalytic residues [active] 424182001284 metal binding site [ion binding]; metal-binding site 424182001285 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 424182001286 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 424182001287 putative active site [active] 424182001288 substrate binding site [chemical binding]; other site 424182001289 putative cosubstrate binding site; other site 424182001290 catalytic site [active] 424182001291 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 424182001292 substrate binding site [chemical binding]; other site 424182001293 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 424182001294 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 424182001295 dimerization interface 3.5A [polypeptide binding]; other site 424182001296 active site 424182001297 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 424182001298 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 424182001299 metal binding site [ion binding]; metal-binding site 424182001300 dimer interface [polypeptide binding]; other site 424182001301 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 424182001302 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 424182001303 trimer interface [polypeptide binding]; other site 424182001304 active site 424182001305 substrate binding site [chemical binding]; other site 424182001306 CoA binding site [chemical binding]; other site 424182001307 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 424182001308 Cache domain; Region: Cache_1; pfam02743 424182001309 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 424182001310 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 424182001311 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182001312 dimer interface [polypeptide binding]; other site 424182001313 putative CheW interface [polypeptide binding]; other site 424182001314 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 424182001315 active site 424182001316 tetramer interface [polypeptide binding]; other site 424182001317 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 424182001318 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 424182001319 putative dimer interface [polypeptide binding]; other site 424182001320 Uncharacterized small protein [Function unknown]; Region: COG5568 424182001321 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 424182001322 Ca2+ binding site [ion binding]; other site 424182001323 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 424182001324 Ca2+ binding site [ion binding]; other site 424182001325 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 424182001326 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 424182001327 homohexameric interface [polypeptide binding]; other site 424182001328 feedback inhibition sensing region; other site 424182001329 carbamate kinase; Reviewed; Region: PRK12686 424182001330 nucleotide binding site [chemical binding]; other site 424182001331 N-acetyl-L-glutamate binding site [chemical binding]; other site 424182001332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 424182001333 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 424182001334 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 424182001335 G1 box; other site 424182001336 GTP/Mg2+ binding site [chemical binding]; other site 424182001337 Switch I region; other site 424182001338 G2 box; other site 424182001339 G3 box; other site 424182001340 Switch II region; other site 424182001341 G4 box; other site 424182001342 G5 box; other site 424182001343 membrane protein insertase; Provisional; Region: PRK01318 424182001344 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 424182001345 ribonuclease P; Reviewed; Region: rnpA; PRK01313 424182001346 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 424182001347 dimerization interface [polypeptide binding]; other site 424182001348 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182001349 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182001350 dimer interface [polypeptide binding]; other site 424182001351 putative CheW interface [polypeptide binding]; other site 424182001352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182001353 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 424182001354 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 424182001355 ATP binding site [chemical binding]; other site 424182001356 Mg2+ binding site [ion binding]; other site 424182001357 G-X-G motif; other site 424182001358 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 424182001359 S-adenosylmethionine binding site [chemical binding]; other site 424182001360 Transposase; Region: HTH_Tnp_1; cl17663 424182001361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182001362 HTH-like domain; Region: HTH_21; pfam13276 424182001363 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 424182001364 Integrase core domain; Region: rve; pfam00665 424182001365 Integrase core domain; Region: rve_3; pfam13683 424182001366 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 424182001367 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182001368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182001369 Walker A/P-loop; other site 424182001370 ATP binding site [chemical binding]; other site 424182001371 Q-loop/lid; other site 424182001372 ABC transporter signature motif; other site 424182001373 Walker B; other site 424182001374 D-loop; other site 424182001375 H-loop/switch region; other site 424182001376 TOBE domain; Region: TOBE_2; pfam08402 424182001377 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182001378 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001379 putative PBP binding loops; other site 424182001380 dimer interface [polypeptide binding]; other site 424182001381 ABC-ATPase subunit interface; other site 424182001382 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182001383 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001384 dimer interface [polypeptide binding]; other site 424182001385 conserved gate region; other site 424182001386 putative PBP binding loops; other site 424182001387 ABC-ATPase subunit interface; other site 424182001388 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182001389 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182001390 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 424182001391 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 424182001392 active site 424182001393 metal binding site [ion binding]; metal-binding site 424182001394 hexamer interface [polypeptide binding]; other site 424182001395 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 424182001396 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 424182001397 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 424182001398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 424182001399 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 424182001400 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 424182001401 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 424182001402 active site 424182001403 substrate binding pocket [chemical binding]; other site 424182001404 dimer interface [polypeptide binding]; other site 424182001405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 424182001406 active site 424182001407 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 424182001408 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182001409 putative substrate binding site [chemical binding]; other site 424182001410 putative ATP binding site [chemical binding]; other site 424182001411 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 424182001412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 424182001413 Ornithine carbamoyltransferase [Amino acid transport and metabolism]; Region: ArgF; COG0078 424182001414 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 424182001415 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 424182001416 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 424182001417 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 424182001418 active site 424182001419 dimer interface [polypeptide binding]; other site 424182001420 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 424182001421 dimer interface [polypeptide binding]; other site 424182001422 active site 424182001423 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 424182001424 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 424182001425 acyl-activating enzyme (AAE) consensus motif; other site 424182001426 putative AMP binding site [chemical binding]; other site 424182001427 putative active site [active] 424182001428 putative CoA binding site [chemical binding]; other site 424182001429 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182001430 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 424182001431 Walker A/P-loop; other site 424182001432 ATP binding site [chemical binding]; other site 424182001433 Q-loop/lid; other site 424182001434 ABC transporter signature motif; other site 424182001435 Walker B; other site 424182001436 D-loop; other site 424182001437 H-loop/switch region; other site 424182001438 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182001439 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182001440 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 424182001441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001442 dimer interface [polypeptide binding]; other site 424182001443 conserved gate region; other site 424182001444 putative PBP binding loops; other site 424182001445 ABC-ATPase subunit interface; other site 424182001446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001447 dimer interface [polypeptide binding]; other site 424182001448 conserved gate region; other site 424182001449 ABC-ATPase subunit interface; other site 424182001450 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 424182001451 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 424182001452 N-terminal plug; other site 424182001453 ligand-binding site [chemical binding]; other site 424182001454 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182001455 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182001456 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182001457 PRC-barrel domain; Region: PRC; pfam05239 424182001458 Protein of unknown function (DUF982); Region: DUF982; pfam06169 424182001459 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 424182001460 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 424182001461 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 424182001462 FMN binding site [chemical binding]; other site 424182001463 substrate binding site [chemical binding]; other site 424182001464 putative catalytic residue [active] 424182001465 phosphodiesterase; Provisional; Region: PRK12704 424182001466 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 424182001467 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 424182001468 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 424182001469 dimer interface [polypeptide binding]; other site 424182001470 phosphorylation site [posttranslational modification] 424182001471 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 424182001472 ATP binding site [chemical binding]; other site 424182001473 Mg2+ binding site [ion binding]; other site 424182001474 G-X-G motif; other site 424182001475 PBP superfamily domain; Region: PBP_like_2; pfam12849 424182001476 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 424182001477 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 424182001478 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001479 dimer interface [polypeptide binding]; other site 424182001480 conserved gate region; other site 424182001481 putative PBP binding loops; other site 424182001482 ABC-ATPase subunit interface; other site 424182001483 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 424182001484 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 424182001485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001486 dimer interface [polypeptide binding]; other site 424182001487 conserved gate region; other site 424182001488 putative PBP binding loops; other site 424182001489 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182001490 ABC-ATPase subunit interface; other site 424182001491 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 424182001492 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 424182001493 Walker A/P-loop; other site 424182001494 ATP binding site [chemical binding]; other site 424182001495 Q-loop/lid; other site 424182001496 ABC transporter signature motif; other site 424182001497 Walker B; other site 424182001498 D-loop; other site 424182001499 H-loop/switch region; other site 424182001500 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 424182001501 PhoU domain; Region: PhoU; pfam01895 424182001502 PhoU domain; Region: PhoU; pfam01895 424182001503 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 424182001504 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 424182001505 active site 424182001506 phosphorylation site [posttranslational modification] 424182001507 intermolecular recognition site; other site 424182001508 dimerization interface [polypeptide binding]; other site 424182001509 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 424182001510 DNA binding site [nucleotide binding] 424182001511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 424182001512 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 424182001513 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 424182001514 inhibitor-cofactor binding pocket; inhibition site 424182001515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182001516 catalytic residue [active] 424182001517 ornithine carbamoyltransferase; Provisional; Region: PRK00779 424182001518 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 424182001519 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 424182001520 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 424182001521 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 424182001522 dimerization interface [polypeptide binding]; other site 424182001523 domain crossover interface; other site 424182001524 redox-dependent activation switch; other site 424182001525 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 424182001526 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 424182001527 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 424182001528 homodimer interface [polypeptide binding]; other site 424182001529 substrate-cofactor binding pocket; other site 424182001530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182001531 catalytic residue [active] 424182001532 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 424182001533 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 424182001534 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 424182001535 trimer interface [polypeptide binding]; other site 424182001536 active site 424182001537 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 424182001538 trimer interface [polypeptide binding]; other site 424182001539 active site 424182001540 integrase; Provisional; Region: PRK09692 424182001541 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 424182001542 active site 424182001543 Int/Topo IB signature motif; other site 424182001544 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182001545 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 424182001546 active site 424182001547 phosphorylation site [posttranslational modification] 424182001548 intermolecular recognition site; other site 424182001549 Response regulator receiver domain; Region: Response_reg; pfam00072 424182001550 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 424182001551 active site 424182001552 phosphorylation site [posttranslational modification] 424182001553 intermolecular recognition site; other site 424182001554 dimerization interface [polypeptide binding]; other site 424182001555 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 424182001556 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 424182001557 multiple promoter invertase; Provisional; Region: mpi; PRK13413 424182001558 catalytic residues [active] 424182001559 catalytic nucleophile [active] 424182001560 Presynaptic Site I dimer interface [polypeptide binding]; other site 424182001561 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 424182001562 Synaptic Flat tetramer interface [polypeptide binding]; other site 424182001563 Synaptic Site I dimer interface [polypeptide binding]; other site 424182001564 DNA binding site [nucleotide binding] 424182001565 Transposase; Region: HTH_Tnp_1; cl17663 424182001566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182001567 HTH-like domain; Region: HTH_21; pfam13276 424182001568 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 424182001569 Integrase core domain; Region: rve; pfam00665 424182001570 Integrase core domain; Region: rve_3; pfam13683 424182001571 AAA domain; Region: AAA_22; pfam13401 424182001572 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 424182001573 amphipathic channel; other site 424182001574 Asn-Pro-Ala signature motifs; other site 424182001575 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 424182001576 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 424182001577 DXD motif; other site 424182001578 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182001579 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 424182001580 substrate binding pocket [chemical binding]; other site 424182001581 membrane-bound complex binding site; other site 424182001582 hinge residues; other site 424182001583 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 424182001584 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 424182001585 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 424182001586 O-Antigen ligase; Region: Wzy_C; pfam04932 424182001587 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 424182001588 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 424182001589 putative active site [active] 424182001590 putative metal binding site [ion binding]; other site 424182001591 Predicted transcriptional regulator [Transcription]; Region: COG2932 424182001592 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 424182001593 Catalytic site [active] 424182001594 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182001595 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 424182001596 active site 424182001597 phosphorylation site [posttranslational modification] 424182001598 intermolecular recognition site; other site 424182001599 dimerization interface [polypeptide binding]; other site 424182001600 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 424182001601 DNA binding residues [nucleotide binding] 424182001602 dimerization interface [polypeptide binding]; other site 424182001603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 424182001604 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 424182001605 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 424182001606 quinone interaction residues [chemical binding]; other site 424182001607 active site 424182001608 catalytic residues [active] 424182001609 FMN binding site [chemical binding]; other site 424182001610 substrate binding site [chemical binding]; other site 424182001611 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 424182001612 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 424182001613 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 424182001614 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 424182001615 S-adenosylmethionine binding site [chemical binding]; other site 424182001616 Uncharacterized conserved protein [Function unknown]; Region: COG1284 424182001617 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 424182001618 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 424182001619 Uncharacterized conserved protein [Function unknown]; Region: COG1284 424182001620 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 424182001621 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 424182001622 Uncharacterized conserved protein [Function unknown]; Region: COG2128 424182001623 Predicted transcriptional regulator [Transcription]; Region: COG1959 424182001624 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 424182001625 dimerization interface [polypeptide binding]; other site 424182001626 putative Zn2+ binding site [ion binding]; other site 424182001627 putative DNA binding site [nucleotide binding]; other site 424182001628 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 424182001629 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 424182001630 ATP binding site [chemical binding]; other site 424182001631 putative Mg++ binding site [ion binding]; other site 424182001632 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 424182001633 nucleotide binding region [chemical binding]; other site 424182001634 ATP-binding site [chemical binding]; other site 424182001635 DEAD/H associated; Region: DEAD_assoc; pfam08494 424182001636 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 424182001637 putative active site [active] 424182001638 putative metal binding site [ion binding]; other site 424182001639 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 424182001640 Ligand Binding Site [chemical binding]; other site 424182001641 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 424182001642 Predicted permeases [General function prediction only]; Region: COG0730 424182001643 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 424182001644 Sel1-like repeats; Region: SEL1; smart00671 424182001645 Sel1-like repeats; Region: SEL1; smart00671 424182001646 Sel1-like repeats; Region: SEL1; smart00671 424182001647 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 424182001648 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182001649 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 424182001650 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 424182001651 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 424182001652 FAD binding site [chemical binding]; other site 424182001653 substrate binding site [chemical binding]; other site 424182001654 catalytic residues [active] 424182001655 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 424182001656 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 424182001657 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 424182001658 dimer interface [polypeptide binding]; other site 424182001659 active site 424182001660 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 424182001661 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 424182001662 substrate binding site [chemical binding]; other site 424182001663 oxyanion hole (OAH) forming residues; other site 424182001664 trimer interface [polypeptide binding]; other site 424182001665 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 424182001666 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 424182001667 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 424182001668 RES domain; Region: RES; smart00953 424182001669 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 424182001670 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 424182001671 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 424182001672 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 424182001673 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 424182001674 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 424182001675 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 424182001676 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 424182001677 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 424182001678 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 424182001679 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 424182001680 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 424182001681 heme-binding site [chemical binding]; other site 424182001682 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182001683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182001684 dimer interface [polypeptide binding]; other site 424182001685 putative CheW interface [polypeptide binding]; other site 424182001686 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 424182001687 anti sigma factor interaction site; other site 424182001688 regulatory phosphorylation site [posttranslational modification]; other site 424182001689 Response regulator receiver domain; Region: Response_reg; pfam00072 424182001690 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 424182001691 active site 424182001692 phosphorylation site [posttranslational modification] 424182001693 intermolecular recognition site; other site 424182001694 dimerization interface [polypeptide binding]; other site 424182001695 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 424182001696 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 424182001697 putative binding surface; other site 424182001698 active site 424182001699 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 424182001700 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 424182001701 ATP binding site [chemical binding]; other site 424182001702 Mg2+ binding site [ion binding]; other site 424182001703 G-X-G motif; other site 424182001704 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 424182001705 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 424182001706 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 424182001707 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 424182001708 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 424182001709 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 424182001710 active site 424182001711 phosphorylation site [posttranslational modification] 424182001712 intermolecular recognition site; other site 424182001713 dimerization interface [polypeptide binding]; other site 424182001714 CheB methylesterase; Region: CheB_methylest; pfam01339 424182001715 Response regulator receiver domain; Region: Response_reg; pfam00072 424182001716 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 424182001717 active site 424182001718 phosphorylation site [posttranslational modification] 424182001719 intermolecular recognition site; other site 424182001720 dimerization interface [polypeptide binding]; other site 424182001721 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13497 424182001722 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 424182001723 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 424182001724 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 424182001725 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182001726 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 424182001727 DNA binding residues [nucleotide binding] 424182001728 dimerization interface [polypeptide binding]; other site 424182001729 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182001730 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 424182001731 DNA binding residues [nucleotide binding] 424182001732 dimerization interface [polypeptide binding]; other site 424182001733 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 424182001734 dimerization interface [polypeptide binding]; other site 424182001735 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182001736 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182001737 dimer interface [polypeptide binding]; other site 424182001738 putative CheW interface [polypeptide binding]; other site 424182001739 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 424182001740 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 424182001741 Na binding site [ion binding]; other site 424182001742 PAS fold; Region: PAS_7; pfam12860 424182001743 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182001744 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 424182001745 dimer interface [polypeptide binding]; other site 424182001746 phosphorylation site [posttranslational modification] 424182001747 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 424182001748 ATP binding site [chemical binding]; other site 424182001749 Mg2+ binding site [ion binding]; other site 424182001750 G-X-G motif; other site 424182001751 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 424182001752 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 424182001753 active site 424182001754 phosphorylation site [posttranslational modification] 424182001755 intermolecular recognition site; other site 424182001756 dimerization interface [polypeptide binding]; other site 424182001757 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 424182001758 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 424182001759 aspartate aminotransferase; Provisional; Region: PRK06108 424182001760 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 424182001761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182001762 homodimer interface [polypeptide binding]; other site 424182001763 catalytic residue [active] 424182001764 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 424182001765 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 424182001766 NAD binding site [chemical binding]; other site 424182001767 homodimer interface [polypeptide binding]; other site 424182001768 active site 424182001769 substrate binding site [chemical binding]; other site 424182001770 zinc-binding protein; Provisional; Region: PRK01343 424182001771 Maf-like protein; Region: Maf; pfam02545 424182001772 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 424182001773 active site 424182001774 dimer interface [polypeptide binding]; other site 424182001775 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 424182001776 rRNA binding site [nucleotide binding]; other site 424182001777 predicted 30S ribosome binding site; other site 424182001778 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 424182001779 Low molecular weight phosphatase family; Region: LMWPc; cd00115 424182001780 active site 424182001781 hypothetical protein; Provisional; Region: PRK02853 424182001782 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 424182001783 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 424182001784 NAD binding site [chemical binding]; other site 424182001785 dimerization interface [polypeptide binding]; other site 424182001786 product binding site; other site 424182001787 substrate binding site [chemical binding]; other site 424182001788 zinc binding site [ion binding]; other site 424182001789 catalytic residues [active] 424182001790 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 424182001791 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 424182001792 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 424182001793 hinge; other site 424182001794 active site 424182001795 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 424182001796 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 424182001797 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 424182001798 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 424182001799 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 424182001800 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 424182001801 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 424182001802 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 424182001803 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 424182001804 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 424182001805 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 424182001806 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 424182001807 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 424182001808 Uncharacterized conserved protein [Function unknown]; Region: COG3334 424182001809 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 424182001810 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 424182001811 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 424182001812 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 424182001813 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 424182001814 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 424182001815 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 424182001816 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 424182001817 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 424182001818 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 424182001819 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 424182001820 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 424182001821 Walker A motif; other site 424182001822 ATP binding site [chemical binding]; other site 424182001823 Walker B motif; other site 424182001824 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 424182001825 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 424182001826 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 424182001827 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182001828 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182001829 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 424182001830 flagellar motor protein MotA; Validated; Region: PRK09110 424182001831 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 424182001832 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 424182001833 flagellar motor switch protein FliN; Region: fliN; TIGR02480 424182001834 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 424182001835 MgtE intracellular N domain; Region: MgtE_N; cl15244 424182001836 FliG C-terminal domain; Region: FliG_C; pfam01706 424182001837 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 424182001838 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 424182001839 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 424182001840 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 424182001841 flagellar motor protein MotB; Validated; Region: motB; PRK05996 424182001842 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 424182001843 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 424182001844 ligand binding site [chemical binding]; other site 424182001845 chemotaxis protein; Reviewed; Region: PRK12798 424182001846 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 424182001847 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 424182001848 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 424182001849 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182001850 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182001851 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 424182001852 active site 424182001853 dimerization interface [polypeptide binding]; other site 424182001854 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 424182001855 DNA binding site [nucleotide binding] 424182001856 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 424182001857 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 424182001858 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 424182001859 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 424182001860 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 424182001861 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 424182001862 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 424182001863 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 424182001864 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 424182001865 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 424182001866 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 424182001867 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 424182001868 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 424182001869 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 424182001870 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 424182001871 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 424182001872 FHIPEP family; Region: FHIPEP; pfam00771 424182001873 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 424182001874 Rod binding protein; Region: Rod-binding; pfam10135 424182001875 Glycosyl transferase WecB/TagA/CpsF family; Region: Glyco_tran_WecB; pfam03808 424182001876 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 424182001877 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 424182001878 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 424182001879 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 424182001880 homodimer interface [polypeptide binding]; other site 424182001881 NADP binding site [chemical binding]; other site 424182001882 substrate binding site [chemical binding]; other site 424182001883 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182001884 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182001885 DNA binding site [nucleotide binding] 424182001886 domain linker motif; other site 424182001887 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 424182001888 ligand binding site [chemical binding]; other site 424182001889 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182001890 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182001891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001892 dimer interface [polypeptide binding]; other site 424182001893 putative PBP binding loops; other site 424182001894 ABC-ATPase subunit interface; other site 424182001895 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182001896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001897 dimer interface [polypeptide binding]; other site 424182001898 conserved gate region; other site 424182001899 putative PBP binding loops; other site 424182001900 ABC-ATPase subunit interface; other site 424182001901 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 424182001902 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 424182001903 active site 424182001904 catalytic site [active] 424182001905 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 424182001906 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182001907 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182001908 Walker A/P-loop; other site 424182001909 ATP binding site [chemical binding]; other site 424182001910 Q-loop/lid; other site 424182001911 ABC transporter signature motif; other site 424182001912 Walker B; other site 424182001913 D-loop; other site 424182001914 H-loop/switch region; other site 424182001915 TOBE domain; Region: TOBE_2; pfam08402 424182001916 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 424182001917 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 424182001918 active site 424182001919 metal binding site [ion binding]; metal-binding site 424182001920 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 424182001921 6-phosphogluconate dehydratase; Region: edd; TIGR01196 424182001922 phosphogluconate dehydratase; Validated; Region: PRK09054 424182001923 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 424182001924 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 424182001925 putative active site [active] 424182001926 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 424182001927 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 424182001928 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 424182001929 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 424182001930 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182001931 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 424182001932 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 424182001933 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 424182001934 Predicted flavoproteins [General function prediction only]; Region: COG2081 424182001935 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182001936 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182001937 dimerization interface [polypeptide binding]; other site 424182001938 LysR substrate binding domain; Region: LysR_substrate; pfam03466 424182001939 isocitrate lyase; Provisional; Region: PRK15063 424182001940 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 424182001941 tetramer interface [polypeptide binding]; other site 424182001942 active site 424182001943 Mg2+/Mn2+ binding site [ion binding]; other site 424182001944 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182001945 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 424182001946 non-specific DNA binding site [nucleotide binding]; other site 424182001947 salt bridge; other site 424182001948 sequence-specific DNA binding site [nucleotide binding]; other site 424182001949 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 424182001950 Domain of unknown function (DUF955); Region: DUF955; pfam06114 424182001951 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 424182001952 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 424182001953 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182001954 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182001955 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 424182001956 Walker A/P-loop; other site 424182001957 ATP binding site [chemical binding]; other site 424182001958 Q-loop/lid; other site 424182001959 ABC transporter signature motif; other site 424182001960 Walker B; other site 424182001961 D-loop; other site 424182001962 H-loop/switch region; other site 424182001963 TOBE domain; Region: TOBE_2; pfam08402 424182001964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001965 dimer interface [polypeptide binding]; other site 424182001966 conserved gate region; other site 424182001967 putative PBP binding loops; other site 424182001968 ABC-ATPase subunit interface; other site 424182001969 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182001970 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001971 dimer interface [polypeptide binding]; other site 424182001972 conserved gate region; other site 424182001973 putative PBP binding loops; other site 424182001974 ABC-ATPase subunit interface; other site 424182001975 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 424182001976 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001977 dimer interface [polypeptide binding]; other site 424182001978 conserved gate region; other site 424182001979 putative PBP binding loops; other site 424182001980 ABC-ATPase subunit interface; other site 424182001981 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182001982 dimer interface [polypeptide binding]; other site 424182001983 conserved gate region; other site 424182001984 putative PBP binding loops; other site 424182001985 ABC-ATPase subunit interface; other site 424182001986 PAS domain; Region: PAS_8; pfam13188 424182001987 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 424182001988 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 424182001989 putative active site [active] 424182001990 heme pocket [chemical binding]; other site 424182001991 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 424182001992 dimer interface [polypeptide binding]; other site 424182001993 phosphorylation site [posttranslational modification] 424182001994 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 424182001995 ATP binding site [chemical binding]; other site 424182001996 Mg2+ binding site [ion binding]; other site 424182001997 G-X-G motif; other site 424182001998 exopolyphosphatase; Region: exo_poly_only; TIGR03706 424182001999 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 424182002000 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 424182002001 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 424182002002 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 424182002003 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182002004 putative substrate translocation pore; other site 424182002005 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 424182002006 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 424182002007 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 424182002008 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 424182002009 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 424182002010 active site 424182002011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5331 424182002012 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 424182002013 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 424182002014 NAD binding site [chemical binding]; other site 424182002015 substrate binding site [chemical binding]; other site 424182002016 catalytic Zn binding site [ion binding]; other site 424182002017 tetramer interface [polypeptide binding]; other site 424182002018 structural Zn binding site [ion binding]; other site 424182002019 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 424182002020 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 424182002021 MPT binding site; other site 424182002022 trimer interface [polypeptide binding]; other site 424182002023 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 424182002024 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 424182002025 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 424182002026 binding surface 424182002027 TPR motif; other site 424182002028 TPR repeat; Region: TPR_11; pfam13414 424182002029 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 424182002030 binding surface 424182002031 TPR repeat; Region: TPR_11; pfam13414 424182002032 TPR motif; other site 424182002033 TPR repeat; Region: TPR_11; pfam13414 424182002034 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 424182002035 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 424182002036 substrate binding pocket [chemical binding]; other site 424182002037 chain length determination region; other site 424182002038 substrate-Mg2+ binding site; other site 424182002039 catalytic residues [active] 424182002040 aspartate-rich region 1; other site 424182002041 active site lid residues [active] 424182002042 aspartate-rich region 2; other site 424182002043 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 424182002044 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 424182002045 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 424182002046 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 424182002047 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 424182002048 tandem repeat interface [polypeptide binding]; other site 424182002049 oligomer interface [polypeptide binding]; other site 424182002050 active site residues [active] 424182002051 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 424182002052 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 424182002053 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 424182002054 dimer interface [polypeptide binding]; other site 424182002055 motif 1; other site 424182002056 active site 424182002057 motif 2; other site 424182002058 motif 3; other site 424182002059 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 424182002060 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 424182002061 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 424182002062 hinge; other site 424182002063 active site 424182002064 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 424182002065 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 424182002066 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 424182002067 Uncharacterized conserved protein [Function unknown]; Region: COG1683 424182002068 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 424182002069 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182002070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182002071 dimer interface [polypeptide binding]; other site 424182002072 putative CheW interface [polypeptide binding]; other site 424182002073 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 424182002074 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 424182002075 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 424182002076 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 424182002077 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 424182002078 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 424182002079 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 424182002080 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 424182002081 RNA binding site [nucleotide binding]; other site 424182002082 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 424182002083 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 424182002084 S-adenosylmethionine binding site [chemical binding]; other site 424182002085 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 424182002086 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 424182002087 UbiA prenyltransferase family; Region: UbiA; pfam01040 424182002088 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182002089 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182002090 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182002091 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182002092 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182002093 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182002094 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 424182002095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182002096 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 424182002097 dimerization interface [polypeptide binding]; other site 424182002098 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 424182002099 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 424182002100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 424182002101 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 424182002102 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 424182002103 nudix motif; other site 424182002104 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 424182002105 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; cl17915 424182002106 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 424182002107 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 424182002108 putative ADP-binding pocket [chemical binding]; other site 424182002109 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182002110 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182002111 DNA-binding site [nucleotide binding]; DNA binding site 424182002112 FCD domain; Region: FCD; pfam07729 424182002113 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4949 424182002114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182002115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182002116 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 424182002117 putative effector binding pocket; other site 424182002118 dimerization interface [polypeptide binding]; other site 424182002119 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 424182002120 FAD binding domain; Region: FAD_binding_4; pfam01565 424182002121 FAD binding domain; Region: FAD_binding_4; pfam01565 424182002122 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 424182002123 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 424182002124 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 424182002125 Cysteine-rich domain; Region: CCG; pfam02754 424182002126 Cysteine-rich domain; Region: CCG; pfam02754 424182002127 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 424182002128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 424182002129 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182002130 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 424182002131 Predicted membrane protein [Function unknown]; Region: COG2855 424182002132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182002133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182002134 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 424182002135 putative dimerization interface [polypeptide binding]; other site 424182002136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 424182002137 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 424182002138 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 424182002139 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 424182002140 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 424182002141 dimer interface [polypeptide binding]; other site 424182002142 motif 1; other site 424182002143 active site 424182002144 motif 2; other site 424182002145 motif 3; other site 424182002146 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 424182002147 anticodon binding site; other site 424182002148 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 424182002149 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182002150 dimer interface [polypeptide binding]; other site 424182002151 putative metal binding site [ion binding]; other site 424182002152 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 424182002153 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 424182002154 dimer interface [polypeptide binding]; other site 424182002155 motif 1; other site 424182002156 active site 424182002157 motif 2; other site 424182002158 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 424182002159 active site 424182002160 motif 3; other site 424182002161 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 424182002162 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 424182002163 Predicted membrane protein [Function unknown]; Region: COG2259 424182002164 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 424182002165 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 424182002166 ring oligomerisation interface [polypeptide binding]; other site 424182002167 ATP/Mg binding site [chemical binding]; other site 424182002168 stacking interactions; other site 424182002169 hinge regions; other site 424182002170 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 424182002171 oligomerisation interface [polypeptide binding]; other site 424182002172 mobile loop; other site 424182002173 roof hairpin; other site 424182002174 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 424182002175 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 424182002176 active site 424182002177 motif I; other site 424182002178 motif II; other site 424182002179 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; cl17915 424182002180 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 424182002181 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 424182002182 active site 424182002183 Riboflavin kinase; Region: Flavokinase; smart00904 424182002184 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 424182002185 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 424182002186 active site 424182002187 HIGH motif; other site 424182002188 nucleotide binding site [chemical binding]; other site 424182002189 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 424182002190 active site 424182002191 KMSKS motif; other site 424182002192 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 424182002193 tRNA binding surface [nucleotide binding]; other site 424182002194 anticodon binding site; other site 424182002195 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 424182002196 nucleoside/Zn binding site; other site 424182002197 dimer interface [polypeptide binding]; other site 424182002198 catalytic motif [active] 424182002199 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 424182002200 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 424182002201 RNA binding surface [nucleotide binding]; other site 424182002202 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 424182002203 active site 424182002204 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 424182002205 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 424182002206 S-adenosylmethionine binding site [chemical binding]; other site 424182002207 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 424182002208 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 424182002209 nucleophile elbow; other site 424182002210 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 424182002211 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 424182002212 TrkA-N domain; Region: TrkA_N; pfam02254 424182002213 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 424182002214 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182002215 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 424182002216 active site 424182002217 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 424182002218 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 424182002219 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 424182002220 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 424182002221 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 424182002222 motif II; other site 424182002223 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 424182002224 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 424182002225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 424182002226 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 424182002227 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 424182002228 ATP binding site [chemical binding]; other site 424182002229 Mg2+ binding site [ion binding]; other site 424182002230 G-X-G motif; other site 424182002231 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 424182002232 ATP binding site [chemical binding]; other site 424182002233 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 424182002234 PAS fold; Region: PAS_7; pfam12860 424182002235 PAS fold; Region: PAS_4; pfam08448 424182002236 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 424182002237 putative active site [active] 424182002238 heme pocket [chemical binding]; other site 424182002239 Response regulator receiver domain; Region: Response_reg; pfam00072 424182002240 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 424182002241 active site 424182002242 phosphorylation site [posttranslational modification] 424182002243 intermolecular recognition site; other site 424182002244 dimerization interface [polypeptide binding]; other site 424182002245 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182002246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182002247 metal binding site [ion binding]; metal-binding site 424182002248 active site 424182002249 I-site; other site 424182002250 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 424182002251 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 424182002252 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 424182002253 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 424182002254 active site 424182002255 intersubunit interface [polypeptide binding]; other site 424182002256 catalytic residue [active] 424182002257 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 424182002258 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 424182002259 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182002260 classical (c) SDRs; Region: SDR_c; cd05233 424182002261 NAD(P) binding site [chemical binding]; other site 424182002262 active site 424182002263 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182002264 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 424182002265 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182002266 Autoinducer binding domain; Region: Autoind_bind; pfam03472 424182002267 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 424182002268 DNA binding residues [nucleotide binding] 424182002269 dimerization interface [polypeptide binding]; other site 424182002270 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182002271 NMT1-like family; Region: NMT1_2; pfam13379 424182002272 Domain of unknown function DUF59; Region: DUF59; pfam01883 424182002273 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 424182002274 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 424182002275 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 424182002276 Cl binding site [ion binding]; other site 424182002277 oligomer interface [polypeptide binding]; other site 424182002278 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 424182002279 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 424182002280 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 424182002281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 424182002282 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 424182002283 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 424182002284 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 424182002285 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 424182002286 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 424182002287 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 424182002288 hypothetical protein; Provisional; Region: PRK09266 424182002289 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 424182002290 substrate-cofactor binding pocket; other site 424182002291 homodimer interface [polypeptide binding]; other site 424182002292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182002293 catalytic residue [active] 424182002294 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 424182002295 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 424182002296 DNA binding residues [nucleotide binding] 424182002297 putative dimer interface [polypeptide binding]; other site 424182002298 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 424182002299 RNA/DNA hybrid binding site [nucleotide binding]; other site 424182002300 active site 424182002301 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 424182002302 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 424182002303 FeS/SAM binding site; other site 424182002304 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 424182002305 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 424182002306 FAD binding domain; Region: FAD_binding_4; pfam01565 424182002307 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 424182002308 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 424182002309 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 424182002310 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 424182002311 [2Fe-2S] cluster binding site [ion binding]; other site 424182002312 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 424182002313 putative alpha subunit interface [polypeptide binding]; other site 424182002314 putative active site [active] 424182002315 putative substrate binding site [chemical binding]; other site 424182002316 Fe binding site [ion binding]; other site 424182002317 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 424182002318 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 424182002319 FAD binding pocket [chemical binding]; other site 424182002320 FAD binding motif [chemical binding]; other site 424182002321 phosphate binding motif [ion binding]; other site 424182002322 beta-alpha-beta structure motif; other site 424182002323 NAD binding pocket [chemical binding]; other site 424182002324 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 424182002325 catalytic loop [active] 424182002326 iron binding site [ion binding]; other site 424182002327 BA14K-like protein; Region: BA14K; pfam07886 424182002328 BA14K-like protein; Region: BA14K; pfam07886 424182002329 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 424182002330 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 424182002331 Cl binding site [ion binding]; other site 424182002332 oligomer interface [polypeptide binding]; other site 424182002333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 424182002334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 424182002335 active site 424182002336 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 424182002337 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 424182002338 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 424182002339 substrate binding site [chemical binding]; other site 424182002340 oxyanion hole (OAH) forming residues; other site 424182002341 trimer interface [polypeptide binding]; other site 424182002342 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 424182002343 TRAM domain; Region: TRAM; pfam01938 424182002344 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 424182002345 S-adenosylmethionine binding site [chemical binding]; other site 424182002346 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 424182002347 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 424182002348 RNA binding surface [nucleotide binding]; other site 424182002349 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 424182002350 S-adenosylmethionine binding site [chemical binding]; other site 424182002351 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 424182002352 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 424182002353 dimerization interface [polypeptide binding]; other site 424182002354 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182002355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182002356 dimer interface [polypeptide binding]; other site 424182002357 putative CheW interface [polypeptide binding]; other site 424182002358 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182002359 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 424182002360 putative DNA binding site [nucleotide binding]; other site 424182002361 putative Zn2+ binding site [ion binding]; other site 424182002362 AsnC family; Region: AsnC_trans_reg; pfam01037 424182002363 Uncharacterized conserved protein [Function unknown]; Region: COG3603 424182002364 Family description; Region: ACT_7; pfam13840 424182002365 Uncharacterized conserved protein [Function unknown]; Region: COG1359 424182002366 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182002367 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 424182002368 non-specific DNA binding site [nucleotide binding]; other site 424182002369 salt bridge; other site 424182002370 sequence-specific DNA binding site [nucleotide binding]; other site 424182002371 SnoaL-like domain; Region: SnoaL_2; pfam12680 424182002372 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 424182002373 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 424182002374 TPP-binding site; other site 424182002375 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 424182002376 PYR/PP interface [polypeptide binding]; other site 424182002377 dimer interface [polypeptide binding]; other site 424182002378 TPP binding site [chemical binding]; other site 424182002379 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 424182002380 Pirin-related protein [General function prediction only]; Region: COG1741 424182002381 Pirin; Region: Pirin; pfam02678 424182002382 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 424182002383 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 424182002384 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 424182002385 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 424182002386 putative active site [active] 424182002387 Zn binding site [ion binding]; other site 424182002388 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 424182002389 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 424182002390 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 424182002391 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 424182002392 Walker A/P-loop; other site 424182002393 ATP binding site [chemical binding]; other site 424182002394 Q-loop/lid; other site 424182002395 ABC transporter signature motif; other site 424182002396 Walker B; other site 424182002397 D-loop; other site 424182002398 H-loop/switch region; other site 424182002399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 424182002400 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 424182002401 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 424182002402 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 424182002403 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 424182002404 dimerization interface [polypeptide binding]; other site 424182002405 active site 424182002406 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 424182002407 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 424182002408 Tetramer interface [polypeptide binding]; other site 424182002409 active site 424182002410 FMN-binding site [chemical binding]; other site 424182002411 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 424182002412 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 424182002413 catalytic core [active] 424182002414 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 424182002415 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 424182002416 NAD binding site [chemical binding]; other site 424182002417 homotetramer interface [polypeptide binding]; other site 424182002418 homodimer interface [polypeptide binding]; other site 424182002419 substrate binding site [chemical binding]; other site 424182002420 active site 424182002421 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 424182002422 HSP70 interaction site [polypeptide binding]; other site 424182002423 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 424182002424 dimer interface [polypeptide binding]; other site 424182002425 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 424182002426 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 424182002427 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 424182002428 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria; Region: NTP-PPase_u1; cd11538 424182002429 metal binding site [ion binding]; metal-binding site 424182002430 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 424182002431 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 424182002432 motif II; other site 424182002433 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 424182002434 dimer interface [polypeptide binding]; other site 424182002435 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182002436 ligand binding site [chemical binding]; other site 424182002437 protease TldD; Provisional; Region: tldD; PRK10735 424182002438 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 424182002439 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 424182002440 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 424182002441 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 424182002442 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 424182002443 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 424182002444 Subunit I/III interface [polypeptide binding]; other site 424182002445 D-pathway; other site 424182002446 Subunit I/VIIc interface [polypeptide binding]; other site 424182002447 Subunit I/IV interface [polypeptide binding]; other site 424182002448 Subunit I/II interface [polypeptide binding]; other site 424182002449 Low-spin heme (heme a) binding site [chemical binding]; other site 424182002450 Subunit I/VIIa interface [polypeptide binding]; other site 424182002451 Subunit I/VIa interface [polypeptide binding]; other site 424182002452 Dimer interface; other site 424182002453 Putative water exit pathway; other site 424182002454 Binuclear center (heme a3/CuB) [ion binding]; other site 424182002455 K-pathway; other site 424182002456 Subunit I/Vb interface [polypeptide binding]; other site 424182002457 Putative proton exit pathway; other site 424182002458 Subunit I/VIb interface; other site 424182002459 Subunit I/VIc interface [polypeptide binding]; other site 424182002460 Electron transfer pathway; other site 424182002461 Subunit I/VIIIb interface [polypeptide binding]; other site 424182002462 Subunit I/VIIb interface [polypeptide binding]; other site 424182002463 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 424182002464 UbiA prenyltransferase family; Region: UbiA; pfam01040 424182002465 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 424182002466 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 424182002467 Subunit III/VIIa interface [polypeptide binding]; other site 424182002468 Phospholipid binding site [chemical binding]; other site 424182002469 Subunit I/III interface [polypeptide binding]; other site 424182002470 Subunit III/VIb interface [polypeptide binding]; other site 424182002471 Subunit III/VIa interface; other site 424182002472 Subunit III/Vb interface [polypeptide binding]; other site 424182002473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 424182002474 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 424182002475 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 424182002476 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 424182002477 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 424182002478 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 424182002479 putative active site [active] 424182002480 putative substrate binding site [chemical binding]; other site 424182002481 ATP binding site [chemical binding]; other site 424182002482 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 424182002483 RNA/DNA hybrid binding site [nucleotide binding]; other site 424182002484 active site 424182002485 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 424182002486 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 424182002487 catalytic triad [active] 424182002488 dimer interface [polypeptide binding]; other site 424182002489 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 424182002490 hypothetical protein; Validated; Region: PRK00228 424182002491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 424182002492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 424182002493 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 424182002494 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 424182002495 PAS fold; Region: PAS_3; pfam08447 424182002496 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 424182002497 putative active site [active] 424182002498 heme pocket [chemical binding]; other site 424182002499 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182002500 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182002501 metal binding site [ion binding]; metal-binding site 424182002502 active site 424182002503 I-site; other site 424182002504 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 424182002505 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 424182002506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182002507 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 424182002508 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 424182002509 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 424182002510 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 424182002511 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 424182002512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182002513 catalytic residue [active] 424182002514 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 424182002515 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 424182002516 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 424182002517 motif II; other site 424182002518 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182002519 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182002520 DNA-binding site [nucleotide binding]; DNA binding site 424182002521 FCD domain; Region: FCD; pfam07729 424182002522 Uncharacterized conserved protein [Function unknown]; Region: COG3543 424182002523 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 424182002524 DNA methylase; Region: N6_N4_Mtase; pfam01555 424182002525 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 424182002526 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 424182002527 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 424182002528 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 424182002529 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 424182002530 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 424182002531 minor groove reading motif; other site 424182002532 helix-hairpin-helix signature motif; other site 424182002533 substrate binding pocket [chemical binding]; other site 424182002534 active site 424182002535 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 424182002536 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 424182002537 DNA binding and oxoG recognition site [nucleotide binding] 424182002538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 424182002539 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 424182002540 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 424182002541 catalytic residues [active] 424182002542 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 424182002543 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 424182002544 Walker A/P-loop; other site 424182002545 ATP binding site [chemical binding]; other site 424182002546 Q-loop/lid; other site 424182002547 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 424182002548 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 424182002549 ABC transporter signature motif; other site 424182002550 Walker B; other site 424182002551 D-loop; other site 424182002552 H-loop/switch region; other site 424182002553 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 424182002554 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 424182002555 putative metal binding site [ion binding]; other site 424182002556 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 424182002557 active site 424182002558 pyruvate phosphate dikinase; Provisional; Region: PRK09279 424182002559 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 424182002560 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 424182002561 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 424182002562 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 424182002563 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 424182002564 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 424182002565 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 424182002566 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 424182002567 malate:quinone oxidoreductase; Validated; Region: PRK05257 424182002568 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 424182002569 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 424182002570 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 424182002571 CysD dimerization site [polypeptide binding]; other site 424182002572 G1 box; other site 424182002573 putative GEF interaction site [polypeptide binding]; other site 424182002574 GTP/Mg2+ binding site [chemical binding]; other site 424182002575 Switch I region; other site 424182002576 G2 box; other site 424182002577 G3 box; other site 424182002578 Switch II region; other site 424182002579 G4 box; other site 424182002580 G5 box; other site 424182002581 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 424182002582 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 424182002583 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 424182002584 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 424182002585 Active Sites [active] 424182002586 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 424182002587 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 424182002588 Active Sites [active] 424182002589 Predicted transcriptional regulator [Transcription]; Region: COG1959 424182002590 Transcriptional regulator; Region: Rrf2; pfam02082 424182002591 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 424182002592 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 424182002593 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 424182002594 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182002595 dimer interface [polypeptide binding]; other site 424182002596 conserved gate region; other site 424182002597 putative PBP binding loops; other site 424182002598 ABC-ATPase subunit interface; other site 424182002599 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182002600 dimer interface [polypeptide binding]; other site 424182002601 conserved gate region; other site 424182002602 putative PBP binding loops; other site 424182002603 ABC-ATPase subunit interface; other site 424182002604 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 424182002605 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 424182002606 Walker A/P-loop; other site 424182002607 ATP binding site [chemical binding]; other site 424182002608 Q-loop/lid; other site 424182002609 ABC transporter signature motif; other site 424182002610 Walker B; other site 424182002611 D-loop; other site 424182002612 H-loop/switch region; other site 424182002613 TOBE-like domain; Region: TOBE_3; pfam12857 424182002614 Predicted transcriptional regulator [Transcription]; Region: COG4190 424182002615 Helix-turn-helix domain; Region: HTH_20; pfam12840 424182002616 putative DNA binding site [nucleotide binding]; other site 424182002617 putative Zn2+ binding site [ion binding]; other site 424182002618 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 424182002619 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 424182002620 NAD(P) binding site [chemical binding]; other site 424182002621 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 424182002622 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 424182002623 FOG: CBS domain [General function prediction only]; Region: COG0517 424182002624 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182002625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182002626 metal binding site [ion binding]; metal-binding site 424182002627 active site 424182002628 I-site; other site 424182002629 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 424182002630 transcriptional regulator BetI; Validated; Region: PRK00767 424182002631 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182002632 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 424182002633 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 424182002634 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 424182002635 NAD(P) binding site [chemical binding]; other site 424182002636 catalytic residues [active] 424182002637 choline dehydrogenase; Validated; Region: PRK02106 424182002638 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182002639 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 424182002640 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 424182002641 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 424182002642 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 424182002643 putative ion selectivity filter; other site 424182002644 putative pore gating glutamate residue; other site 424182002645 putative H+/Cl- coupling transport residue; other site 424182002646 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 424182002647 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 424182002648 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182002649 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 424182002650 C-terminal domain interface [polypeptide binding]; other site 424182002651 GSH binding site (G-site) [chemical binding]; other site 424182002652 dimer interface [polypeptide binding]; other site 424182002653 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 424182002654 dimer interface [polypeptide binding]; other site 424182002655 N-terminal domain interface [polypeptide binding]; other site 424182002656 substrate binding pocket (H-site) [chemical binding]; other site 424182002657 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182002658 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 424182002659 putative C-terminal domain interface [polypeptide binding]; other site 424182002660 putative GSH binding site (G-site) [chemical binding]; other site 424182002661 putative dimer interface [polypeptide binding]; other site 424182002662 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 424182002663 dimer interface [polypeptide binding]; other site 424182002664 N-terminal domain interface [polypeptide binding]; other site 424182002665 putative substrate binding pocket (H-site) [chemical binding]; other site 424182002666 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182002667 MarR family; Region: MarR_2; pfam12802 424182002668 D-galactonate transporter; Region: 2A0114; TIGR00893 424182002669 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 424182002670 putative substrate translocation pore; other site 424182002671 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 424182002672 putative substrate translocation pore; other site 424182002673 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 424182002674 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 424182002675 ATP-dependent DNA ligase; Validated; Region: PRK09247 424182002676 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 424182002677 active site 424182002678 DNA binding site [nucleotide binding] 424182002679 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 424182002680 DNA binding site [nucleotide binding] 424182002681 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182002682 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182002683 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 424182002684 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 424182002685 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 424182002686 metal-binding site [ion binding] 424182002687 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 424182002688 metal-binding site [ion binding] 424182002689 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 424182002690 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 424182002691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 424182002692 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182002693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 424182002694 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182002695 Transcriptional regulators [Transcription]; Region: MarR; COG1846 424182002696 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 424182002697 putative DNA binding site [nucleotide binding]; other site 424182002698 putative Zn2+ binding site [ion binding]; other site 424182002699 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 424182002700 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 424182002701 RES domain; Region: RES; smart00953 424182002702 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 424182002703 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182002704 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182002705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 424182002706 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182002707 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 424182002708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 424182002709 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 424182002710 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182002711 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 424182002712 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182002713 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 424182002714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182002715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182002716 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 424182002717 putative effector binding pocket; other site 424182002718 putative dimerization interface [polypeptide binding]; other site 424182002719 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 424182002720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182002721 NAD(P) binding site [chemical binding]; other site 424182002722 active site 424182002723 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 424182002724 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 424182002725 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 424182002726 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 424182002727 Walker A motif; other site 424182002728 ATP binding site [chemical binding]; other site 424182002729 Walker B motif; other site 424182002730 Predicted transcriptional regulators [Transcription]; Region: COG1733 424182002731 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 424182002732 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 424182002733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182002734 NAD(P) binding site [chemical binding]; other site 424182002735 active site 424182002736 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 424182002737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182002738 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182002739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182002740 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182002741 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 424182002742 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182002743 active site 424182002744 catalytic tetrad [active] 424182002745 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 424182002746 Predicted transcriptional regulator [Transcription]; Region: COG2378 424182002747 HTH domain; Region: HTH_11; pfam08279 424182002748 WYL domain; Region: WYL; pfam13280 424182002749 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182002750 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 424182002751 putative dimer interface [polypeptide binding]; other site 424182002752 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 424182002753 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 424182002754 S-adenosylmethionine binding site [chemical binding]; other site 424182002755 aminotransferase; Provisional; Region: PRK13356 424182002756 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 424182002757 homodimer interface [polypeptide binding]; other site 424182002758 substrate-cofactor binding pocket; other site 424182002759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182002760 catalytic residue [active] 424182002761 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 424182002762 dimerization interface [polypeptide binding]; other site 424182002763 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182002764 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182002765 dimer interface [polypeptide binding]; other site 424182002766 putative CheW interface [polypeptide binding]; other site 424182002767 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182002768 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182002769 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 424182002770 dimerization interface [polypeptide binding]; other site 424182002771 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 424182002772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182002773 Coenzyme A binding pocket [chemical binding]; other site 424182002774 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 424182002775 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 424182002776 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 424182002777 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain; Region: MPP_Nbla03831; cd07396 424182002778 active site 424182002779 metal binding site [ion binding]; metal-binding site 424182002780 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 424182002781 Predicted transcriptional regulator [Transcription]; Region: COG2378 424182002782 HTH domain; Region: HTH_11; pfam08279 424182002783 WYL domain; Region: WYL; pfam13280 424182002784 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182002785 Cytochrome c556 [Energy production and conversion]; Region: COG3909 424182002786 Cytochrome c; Region: Cytochrom_C; cl11414 424182002787 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 424182002788 Cytochrome c; Region: Cytochrom_C; pfam00034 424182002789 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 424182002790 Predicted integral membrane protein [Function unknown]; Region: COG5446 424182002791 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 424182002792 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 424182002793 conserved cys residue [active] 424182002794 putative acetyltransferase; Provisional; Region: PRK03624 424182002795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182002796 Coenzyme A binding pocket [chemical binding]; other site 424182002797 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 424182002798 TAP-like protein; Region: Abhydrolase_4; pfam08386 424182002799 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 424182002800 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 424182002801 DNA binding residues [nucleotide binding] 424182002802 dimer interface [polypeptide binding]; other site 424182002803 putative metal binding site [ion binding]; other site 424182002804 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 424182002805 putative metal binding site [ion binding]; other site 424182002806 putative homotetramer interface [polypeptide binding]; other site 424182002807 putative homodimer interface [polypeptide binding]; other site 424182002808 putative homodimer-homodimer interface [polypeptide binding]; other site 424182002809 putative allosteric switch controlling residues; other site 424182002810 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 424182002811 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 424182002812 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 424182002813 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 424182002814 Walker A/P-loop; other site 424182002815 ATP binding site [chemical binding]; other site 424182002816 Q-loop/lid; other site 424182002817 ABC transporter signature motif; other site 424182002818 Walker B; other site 424182002819 D-loop; other site 424182002820 H-loop/switch region; other site 424182002821 CBS domain; Region: CBS; pfam00571 424182002822 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 424182002823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182002824 dimer interface [polypeptide binding]; other site 424182002825 conserved gate region; other site 424182002826 ABC-ATPase subunit interface; other site 424182002827 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 424182002828 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 424182002829 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 424182002830 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182002831 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 424182002832 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 424182002833 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 424182002834 inhibitor site; inhibition site 424182002835 active site 424182002836 dimer interface [polypeptide binding]; other site 424182002837 catalytic residue [active] 424182002838 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 424182002839 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 424182002840 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 424182002841 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 424182002842 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 424182002843 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 424182002844 DNA binding site [nucleotide binding] 424182002845 active site 424182002846 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 424182002847 Domain of unknown function DUF20; Region: UPF0118; pfam01594 424182002848 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 424182002849 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 424182002850 putative metal binding site [ion binding]; other site 424182002851 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 424182002852 active site 424182002853 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 424182002854 Ligand Binding Site [chemical binding]; other site 424182002855 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 424182002856 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 424182002857 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 424182002858 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 424182002859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182002860 Coenzyme A binding pocket [chemical binding]; other site 424182002861 methionine sulfoxide reductase B; Provisional; Region: PRK00222 424182002862 SelR domain; Region: SelR; pfam01641 424182002863 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 424182002864 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 424182002865 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 424182002866 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 424182002867 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 424182002868 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 424182002869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 424182002870 Multisubunit Na+/H+ antiporter, MnhE subunit [Inorganic ion transport and metabolism]; Region: MnhE; COG1863 424182002871 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 424182002872 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 424182002873 Predicted transcriptional regulator [Transcription]; Region: COG4957 424182002874 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 424182002875 DnaA box-binding interface [nucleotide binding]; other site 424182002876 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 424182002877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182002878 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 424182002879 dimer interface [polypeptide binding]; other site 424182002880 phosphorylation site [posttranslational modification] 424182002881 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 424182002882 ATP binding site [chemical binding]; other site 424182002883 Mg2+ binding site [ion binding]; other site 424182002884 G-X-G motif; other site 424182002885 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 424182002886 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182002887 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182002888 Uncharacterized conserved protein [Function unknown]; Region: COG5447 424182002889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 424182002890 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 424182002891 Predicted integral membrane protein [Function unknown]; Region: COG5436 424182002892 Uncharacterized conserved protein [Function unknown]; Region: COG5402 424182002893 Lysine efflux permease [General function prediction only]; Region: COG1279 424182002894 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 424182002895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182002896 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 424182002897 dimerization interface [polypeptide binding]; other site 424182002898 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 424182002899 Beta-lactamase; Region: Beta-lactamase; pfam00144 424182002900 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 424182002901 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 424182002902 Transglycosylase; Region: Transgly; pfam00912 424182002903 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 424182002904 hypothetical protein; Provisional; Region: PRK05170 424182002905 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 424182002906 Methyltransferase domain; Region: Methyltransf_23; pfam13489 424182002907 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 424182002908 S-adenosylmethionine binding site [chemical binding]; other site 424182002909 Uncharacterized conserved protein [Function unknown]; Region: COG3339 424182002910 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 424182002911 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 424182002912 metal-binding site [ion binding] 424182002913 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 424182002914 Selenoprotein P, N terminal region; Region: SelP_N; pfam04592 424182002915 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 424182002916 Soluble P-type ATPase [General function prediction only]; Region: COG4087 424182002917 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 424182002918 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 424182002919 DNA binding residues [nucleotide binding] 424182002920 dimer interface [polypeptide binding]; other site 424182002921 copper binding site [ion binding]; other site 424182002922 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 424182002923 metal-binding site [ion binding] 424182002924 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 424182002925 putative substrate translocation pore; other site 424182002926 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 424182002927 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 424182002928 substrate binding [chemical binding]; other site 424182002929 active site 424182002930 Uncharacterized conserved protein [Function unknown]; Region: COG0397 424182002931 hypothetical protein; Validated; Region: PRK00029 424182002932 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 424182002933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182002934 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 424182002935 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 424182002936 putative DNA binding site [nucleotide binding]; other site 424182002937 putative Zn2+ binding site [ion binding]; other site 424182002938 AsnC family; Region: AsnC_trans_reg; pfam01037 424182002939 Predicted transcriptional regulators [Transcription]; Region: COG1733 424182002940 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 424182002941 dimerization interface [polypeptide binding]; other site 424182002942 putative DNA binding site [nucleotide binding]; other site 424182002943 putative Zn2+ binding site [ion binding]; other site 424182002944 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 424182002945 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 424182002946 NADP binding site [chemical binding]; other site 424182002947 Predicted membrane protein [Function unknown]; Region: COG4425 424182002948 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 424182002949 Uncharacterized conserved protein [Function unknown]; Region: COG5323 424182002950 Terminase-like family; Region: Terminase_6; pfam03237 424182002951 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 424182002952 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 424182002953 Phage-related protein [Function unknown]; Region: COG4695 424182002954 Phage portal protein; Region: Phage_portal; pfam04860 424182002955 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182002956 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 424182002957 Predicted secreted protein [Function unknown]; Region: COG5437 424182002958 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 424182002959 Phage-related minor tail protein [Function unknown]; Region: COG5281 424182002960 TIGR02217 family protein; Region: chp_TIGR02217 424182002961 Uncharacterized conserved protein [Function unknown]; Region: COG5449 424182002962 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 424182002963 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 424182002964 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 424182002965 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 424182002966 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 424182002967 Putative phage tail protein; Region: Phage-tail_3; pfam13550 424182002968 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182002969 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 424182002970 active site 424182002971 phosphorylation site [posttranslational modification] 424182002972 intermolecular recognition site; other site 424182002973 dimerization interface [polypeptide binding]; other site 424182002974 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 424182002975 DNA binding site [nucleotide binding] 424182002976 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182002977 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 424182002978 ATP binding site [chemical binding]; other site 424182002979 Mg2+ binding site [ion binding]; other site 424182002980 G-X-G motif; other site 424182002981 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 424182002982 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 424182002983 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 424182002984 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 424182002985 binding surface 424182002986 TPR motif; other site 424182002987 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 424182002988 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 424182002989 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 424182002990 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 424182002991 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 424182002992 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 424182002993 protein binding site [polypeptide binding]; other site 424182002994 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 424182002995 protein binding site [polypeptide binding]; other site 424182002996 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182002997 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 424182002998 active site 424182002999 phosphorylation site [posttranslational modification] 424182003000 intermolecular recognition site; other site 424182003001 dimerization interface [polypeptide binding]; other site 424182003002 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 424182003003 DNA binding site [nucleotide binding] 424182003004 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182003005 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 424182003006 dimerization interface [polypeptide binding]; other site 424182003007 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 424182003008 dimer interface [polypeptide binding]; other site 424182003009 phosphorylation site [posttranslational modification] 424182003010 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 424182003011 ATP binding site [chemical binding]; other site 424182003012 Mg2+ binding site [ion binding]; other site 424182003013 G-X-G motif; other site 424182003014 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 424182003015 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 424182003016 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 424182003017 metal binding triad; other site 424182003018 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 424182003019 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 424182003020 metal binding triad; other site 424182003021 PAS fold; Region: PAS_3; pfam08447 424182003022 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 424182003023 PAS fold; Region: PAS_7; pfam12860 424182003024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182003025 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 424182003026 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 424182003027 dimer interface [polypeptide binding]; other site 424182003028 phosphorylation site [posttranslational modification] 424182003029 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 424182003030 ATP binding site [chemical binding]; other site 424182003031 Mg2+ binding site [ion binding]; other site 424182003032 G-X-G motif; other site 424182003033 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 424182003034 aminopeptidase N; Provisional; Region: pepN; PRK14015 424182003035 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 424182003036 active site 424182003037 Zn binding site [ion binding]; other site 424182003038 EamA-like transporter family; Region: EamA; pfam00892 424182003039 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182003040 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 424182003041 Fe-S cluster binding site [ion binding]; other site 424182003042 active site 424182003043 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 424182003044 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 424182003045 nucleotide binding site [chemical binding]; other site 424182003046 putative NEF/HSP70 interaction site [polypeptide binding]; other site 424182003047 SBD interface [polypeptide binding]; other site 424182003048 PAS fold; Region: PAS_7; pfam12860 424182003049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182003050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182003051 metal binding site [ion binding]; metal-binding site 424182003052 active site 424182003053 I-site; other site 424182003054 short chain dehydrogenase; Provisional; Region: PRK08339 424182003055 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 424182003056 putative NAD(P) binding site [chemical binding]; other site 424182003057 putative active site [active] 424182003058 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: COG3965 424182003059 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 424182003060 hydroxyglutarate oxidase; Provisional; Region: PRK11728 424182003061 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 424182003062 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 424182003063 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 424182003064 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 424182003065 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 424182003066 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 424182003067 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 424182003068 putative NAD(P) binding site [chemical binding]; other site 424182003069 dimer interface [polypeptide binding]; other site 424182003070 Predicted transcriptional regulators [Transcription]; Region: COG1733 424182003071 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 424182003072 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 424182003073 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 424182003074 MgtE intracellular N domain; Region: MgtE_N; pfam03448 424182003075 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 424182003076 Divalent cation transporter; Region: MgtE; pfam01769 424182003077 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 424182003078 putative substrate translocation pore; other site 424182003079 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182003080 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 424182003081 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 424182003082 putative aminotransferase; Validated; Region: PRK07480 424182003083 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 424182003084 inhibitor-cofactor binding pocket; inhibition site 424182003085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182003086 catalytic residue [active] 424182003087 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 424182003088 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 424182003089 putative active site [active] 424182003090 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 424182003091 AMP nucleosidase; Provisional; Region: PRK08292 424182003092 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 424182003093 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 424182003094 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]; Region: COG2074 424182003095 AAA domain; Region: AAA_17; pfam13207 424182003096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 424182003097 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 424182003098 Sel1 repeat; Region: Sel1; cl02723 424182003099 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 424182003100 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 424182003101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182003102 homodimer interface [polypeptide binding]; other site 424182003103 catalytic residue [active] 424182003104 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 424182003105 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182003106 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182003107 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 424182003108 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 424182003109 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 424182003110 Porin subfamily; Region: Porin_2; pfam02530 424182003111 Porin subfamily; Region: Porin_2; pfam02530 424182003112 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 424182003113 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 424182003114 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182003115 catalytic residue [active] 424182003116 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 424182003117 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 424182003118 dimer interface [polypeptide binding]; other site 424182003119 active site 424182003120 catalytic residue [active] 424182003121 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 424182003122 SmpB-tmRNA interface; other site 424182003123 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 424182003124 heme-binding site [chemical binding]; other site 424182003125 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182003126 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182003127 dimer interface [polypeptide binding]; other site 424182003128 putative CheW interface [polypeptide binding]; other site 424182003129 Uncharacterized conserved protein [Function unknown]; Region: COG1432 424182003130 LabA_like proteins; Region: LabA; cd10911 424182003131 putative metal binding site [ion binding]; other site 424182003132 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 424182003133 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 424182003134 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 424182003135 Zn2+ binding site [ion binding]; other site 424182003136 Mg2+ binding site [ion binding]; other site 424182003137 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 424182003138 synthetase active site [active] 424182003139 NTP binding site [chemical binding]; other site 424182003140 metal binding site [ion binding]; metal-binding site 424182003141 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 424182003142 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 424182003143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 424182003144 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 424182003145 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 424182003146 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 424182003147 Catalytic site [active] 424182003148 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 424182003149 ribonuclease III; Reviewed; Region: PRK12371 424182003150 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 424182003151 dimerization interface [polypeptide binding]; other site 424182003152 active site 424182003153 metal binding site [ion binding]; metal-binding site 424182003154 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 424182003155 dsRNA binding site [nucleotide binding]; other site 424182003156 GTPase Era; Reviewed; Region: era; PRK00089 424182003157 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 424182003158 G1 box; other site 424182003159 GTP/Mg2+ binding site [chemical binding]; other site 424182003160 Switch I region; other site 424182003161 G2 box; other site 424182003162 Switch II region; other site 424182003163 G3 box; other site 424182003164 G4 box; other site 424182003165 G5 box; other site 424182003166 KH domain; Region: KH_2; pfam07650 424182003167 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 424182003168 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 424182003169 ligand binding site [chemical binding]; other site 424182003170 flexible hinge region; other site 424182003171 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 424182003172 putative switch regulator; other site 424182003173 non-specific DNA interactions [nucleotide binding]; other site 424182003174 DNA binding site [nucleotide binding] 424182003175 sequence specific DNA binding site [nucleotide binding]; other site 424182003176 putative cAMP binding site [chemical binding]; other site 424182003177 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 424182003178 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 424182003179 active site 424182003180 phosphorylation site [posttranslational modification] 424182003181 intermolecular recognition site; other site 424182003182 dimerization interface [polypeptide binding]; other site 424182003183 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 424182003184 Recombination protein O N terminal; Region: RecO_N; pfam11967 424182003185 Recombination protein O C terminal; Region: RecO_C; pfam02565 424182003186 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 424182003187 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182003188 putative substrate translocation pore; other site 424182003189 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 424182003190 S-adenosylmethionine binding site [chemical binding]; other site 424182003191 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 424182003192 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 424182003193 MOSC domain; Region: MOSC; pfam03473 424182003194 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 424182003195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 424182003196 Zn2+ binding site [ion binding]; other site 424182003197 Mg2+ binding site [ion binding]; other site 424182003198 Predicted membrane protein [Function unknown]; Region: COG5373 424182003199 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 424182003200 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182003201 Zn binding site [ion binding]; other site 424182003202 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 424182003203 Zn binding site [ion binding]; other site 424182003204 Predicted esterase [General function prediction only]; Region: COG0400 424182003205 NMT1/THI5 like; Region: NMT1; pfam09084 424182003206 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 424182003207 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 424182003208 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182003209 Walker A/P-loop; other site 424182003210 ATP binding site [chemical binding]; other site 424182003211 Q-loop/lid; other site 424182003212 ABC transporter signature motif; other site 424182003213 Walker B; other site 424182003214 D-loop; other site 424182003215 H-loop/switch region; other site 424182003216 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182003217 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182003218 dimer interface [polypeptide binding]; other site 424182003219 conserved gate region; other site 424182003220 putative PBP binding loops; other site 424182003221 ABC-ATPase subunit interface; other site 424182003222 YodA lipocalin-like domain; Region: YodA; pfam09223 424182003223 Conserved TM helix; Region: TM_helix; pfam05552 424182003224 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 424182003225 Mechanosensitive ion channel; Region: MS_channel; pfam00924 424182003226 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 424182003227 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 424182003228 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 424182003229 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 424182003230 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 424182003231 TIGR02301 family protein; Region: TIGR02301 424182003232 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 424182003233 nudix motif; other site 424182003234 hypothetical protein; Provisional; Region: PRK02237 424182003235 Uncharacterized conserved protein [Function unknown]; Region: COG2135 424182003236 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 424182003237 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 424182003238 active site 424182003239 phosphorylation site [posttranslational modification] 424182003240 intermolecular recognition site; other site 424182003241 dimerization interface [polypeptide binding]; other site 424182003242 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 424182003243 active site 424182003244 phosphorylation site [posttranslational modification] 424182003245 intermolecular recognition site; other site 424182003246 dimerization interface [polypeptide binding]; other site 424182003247 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182003248 metal binding site [ion binding]; metal-binding site 424182003249 active site 424182003250 I-site; other site 424182003251 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 424182003252 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 424182003253 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 424182003254 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182003255 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 424182003256 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 424182003257 Walker A/P-loop; other site 424182003258 ATP binding site [chemical binding]; other site 424182003259 Q-loop/lid; other site 424182003260 ABC transporter signature motif; other site 424182003261 Walker B; other site 424182003262 D-loop; other site 424182003263 H-loop/switch region; other site 424182003264 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 424182003265 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 424182003266 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 424182003267 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 424182003268 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 424182003269 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 424182003270 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 424182003271 Predicted permeases [General function prediction only]; Region: RarD; COG2962 424182003272 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 424182003273 Uncharacterized conserved protein [Function unknown]; Region: COG3791 424182003274 Uncharacterized conserved protein [Function unknown]; Region: COG3791 424182003275 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 424182003276 putative active site [active] 424182003277 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 424182003278 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 424182003279 active site 424182003280 HIGH motif; other site 424182003281 nucleotide binding site [chemical binding]; other site 424182003282 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 424182003283 KMSKS motif; other site 424182003284 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 424182003285 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182003286 classical (c) SDRs; Region: SDR_c; cd05233 424182003287 NAD(P) binding site [chemical binding]; other site 424182003288 active site 424182003289 amidophosphoribosyltransferase; Provisional; Region: PRK09123 424182003290 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 424182003291 active site 424182003292 tetramer interface [polypeptide binding]; other site 424182003293 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 424182003294 active site 424182003295 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 424182003296 Colicin V production protein; Region: Colicin_V; pfam02674 424182003297 DNA repair protein RadA; Provisional; Region: PRK11823 424182003298 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 424182003299 Walker A motif/ATP binding site; other site 424182003300 ATP binding site [chemical binding]; other site 424182003301 Walker B motif; other site 424182003302 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 424182003303 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 424182003304 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 424182003305 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 424182003306 active site 424182003307 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 424182003308 dimer interface [polypeptide binding]; other site 424182003309 substrate binding site [chemical binding]; other site 424182003310 catalytic residues [active] 424182003311 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 424182003312 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182003313 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182003314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182003315 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 424182003316 Predicted membrane protein [Function unknown]; Region: COG4541 424182003317 replicative DNA helicase; Provisional; Region: PRK09165 424182003318 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 424182003319 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 424182003320 Walker A motif; other site 424182003321 ATP binding site [chemical binding]; other site 424182003322 Walker B motif; other site 424182003323 DNA binding loops [nucleotide binding] 424182003324 MarR family; Region: MarR; pfam01047 424182003325 transcriptional regulator SlyA; Provisional; Region: PRK03573 424182003326 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 424182003327 putative substrate translocation pore; other site 424182003328 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 424182003329 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 424182003330 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182003331 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182003332 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 424182003333 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 424182003334 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 424182003335 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 424182003336 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 424182003337 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 424182003338 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182003339 active site 424182003340 catalytic tetrad [active] 424182003341 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 424182003342 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 424182003343 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 424182003344 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 424182003345 NAD(P) binding site [chemical binding]; other site 424182003346 homotetramer interface [polypeptide binding]; other site 424182003347 homodimer interface [polypeptide binding]; other site 424182003348 active site 424182003349 acyl carrier protein; Provisional; Region: acpP; PRK00982 424182003350 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 424182003351 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 424182003352 dimer interface [polypeptide binding]; other site 424182003353 active site 424182003354 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 424182003355 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 424182003356 dimerization interface [polypeptide binding]; other site 424182003357 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 424182003358 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 424182003359 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 424182003360 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 424182003361 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 424182003362 catalytic site [active] 424182003363 G-X2-G-X-G-K; other site 424182003364 Predicted esterase [General function prediction only]; Region: COG0400 424182003365 putative hydrolase; Provisional; Region: PRK11460 424182003366 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 424182003367 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 424182003368 S-adenosylmethionine binding site [chemical binding]; other site 424182003369 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 424182003370 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 424182003371 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 424182003372 SurA N-terminal domain; Region: SurA_N; pfam09312 424182003373 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 424182003374 Organic solvent tolerance protein; Region: OstA_C; pfam04453 424182003375 Predicted permeases [General function prediction only]; Region: COG0795 424182003376 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 424182003377 Predicted permeases [General function prediction only]; Region: COG0795 424182003378 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 424182003379 multifunctional aminopeptidase A; Provisional; Region: PRK00913 424182003380 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 424182003381 interface (dimer of trimers) [polypeptide binding]; other site 424182003382 Substrate-binding/catalytic site; other site 424182003383 Zn-binding sites [ion binding]; other site 424182003384 DNA polymerase III subunit chi; Validated; Region: PRK05728 424182003385 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 424182003386 GAF domain; Region: GAF; pfam01590 424182003387 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182003388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182003389 metal binding site [ion binding]; metal-binding site 424182003390 active site 424182003391 I-site; other site 424182003392 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182003393 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182003394 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182003395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182003396 metal binding site [ion binding]; metal-binding site 424182003397 active site 424182003398 I-site; other site 424182003399 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182003400 metal binding site [ion binding]; metal-binding site 424182003401 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 424182003402 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 424182003403 ATP binding site [chemical binding]; other site 424182003404 Mg2+ binding site [ion binding]; other site 424182003405 G-X-G motif; other site 424182003406 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 424182003407 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 424182003408 active site 424182003409 phosphorylation site [posttranslational modification] 424182003410 intermolecular recognition site; other site 424182003411 dimerization interface [polypeptide binding]; other site 424182003412 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 424182003413 DNA binding residues [nucleotide binding] 424182003414 dimerization interface [polypeptide binding]; other site 424182003415 Domain of unknown function (DUF336); Region: DUF336; cl01249 424182003416 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 424182003417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182003418 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182003419 ABC transporter; Region: ABC_tran_2; pfam12848 424182003420 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182003421 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182003422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182003423 metal binding site [ion binding]; metal-binding site 424182003424 active site 424182003425 I-site; other site 424182003426 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 424182003427 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182003428 putative C-terminal domain interface [polypeptide binding]; other site 424182003429 putative GSH binding site (G-site) [chemical binding]; other site 424182003430 putative dimer interface [polypeptide binding]; other site 424182003431 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 424182003432 putative N-terminal domain interface [polypeptide binding]; other site 424182003433 putative dimer interface [polypeptide binding]; other site 424182003434 putative substrate binding pocket (H-site) [chemical binding]; other site 424182003435 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 424182003436 active site 424182003437 multimer interface [polypeptide binding]; other site 424182003438 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 424182003439 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 424182003440 CGNR zinc finger; Region: zf-CGNR; pfam11706 424182003441 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 424182003442 TM-ABC transporter signature motif; other site 424182003443 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 424182003444 MoaE homodimer interface [polypeptide binding]; other site 424182003445 MoaD interaction [polypeptide binding]; other site 424182003446 active site residues [active] 424182003447 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 424182003448 MoaE interaction surface [polypeptide binding]; other site 424182003449 MoeB interaction surface [polypeptide binding]; other site 424182003450 thiocarboxylated glycine; other site 424182003451 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 424182003452 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 424182003453 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 424182003454 GIY-YIG motif/motif A; other site 424182003455 active site 424182003456 catalytic site [active] 424182003457 putative DNA binding site [nucleotide binding]; other site 424182003458 metal binding site [ion binding]; metal-binding site 424182003459 UvrB/uvrC motif; Region: UVR; pfam02151 424182003460 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 424182003461 short chain dehydrogenase; Provisional; Region: PRK09134 424182003462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182003463 NAD(P) binding site [chemical binding]; other site 424182003464 active site 424182003465 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 424182003466 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182003467 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 424182003468 putative C-terminal domain interface [polypeptide binding]; other site 424182003469 putative GSH binding site (G-site) [chemical binding]; other site 424182003470 putative dimer interface [polypeptide binding]; other site 424182003471 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 424182003472 dimer interface [polypeptide binding]; other site 424182003473 N-terminal domain interface [polypeptide binding]; other site 424182003474 putative substrate binding pocket (H-site) [chemical binding]; other site 424182003475 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 424182003476 B1 nucleotide binding pocket [chemical binding]; other site 424182003477 B2 nucleotide binding pocket [chemical binding]; other site 424182003478 CAS motifs; other site 424182003479 active site 424182003480 Predicted integral membrane protein [Function unknown]; Region: COG0392 424182003481 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 424182003482 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 424182003483 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 424182003484 putative [4Fe-4S] binding site [ion binding]; other site 424182003485 putative molybdopterin cofactor binding site [chemical binding]; other site 424182003486 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 424182003487 putative molybdopterin cofactor binding site; other site 424182003488 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 424182003489 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 424182003490 dimer interface [polypeptide binding]; other site 424182003491 ADP-ribose binding site [chemical binding]; other site 424182003492 active site 424182003493 nudix motif; other site 424182003494 metal binding site [ion binding]; metal-binding site 424182003495 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 424182003496 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 424182003497 dimer interface [polypeptide binding]; other site 424182003498 ADP-ribose binding site [chemical binding]; other site 424182003499 active site 424182003500 nudix motif; other site 424182003501 metal binding site [ion binding]; metal-binding site 424182003502 Outer membrane protease [Cell envelope biogenesis, outer membrane]; Region: OmpT; COG4571 424182003503 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 424182003504 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 424182003505 active site 424182003506 substrate binding site [chemical binding]; other site 424182003507 cosubstrate binding site; other site 424182003508 catalytic site [active] 424182003509 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 424182003510 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 424182003511 dimerization interface [polypeptide binding]; other site 424182003512 putative ATP binding site [chemical binding]; other site 424182003513 Domain of unknown function DUF20; Region: UPF0118; pfam01594 424182003514 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 424182003515 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 424182003516 hypothetical protein; Validated; Region: PRK09087 424182003517 polyphosphate kinase; Provisional; Region: PRK05443 424182003518 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 424182003519 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 424182003520 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 424182003521 putative domain interface [polypeptide binding]; other site 424182003522 putative active site [active] 424182003523 catalytic site [active] 424182003524 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 424182003525 putative domain interface [polypeptide binding]; other site 424182003526 putative active site [active] 424182003527 catalytic site [active] 424182003528 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 424182003529 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 424182003530 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 424182003531 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 424182003532 trimer interface [polypeptide binding]; other site 424182003533 active site 424182003534 substrate binding site [chemical binding]; other site 424182003535 CoA binding site [chemical binding]; other site 424182003536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 424182003537 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 424182003538 cyclase homology domain; Region: CHD; cd07302 424182003539 nucleotidyl binding site; other site 424182003540 metal binding site [ion binding]; metal-binding site 424182003541 dimer interface [polypeptide binding]; other site 424182003542 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 424182003543 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 424182003544 catalytic site [active] 424182003545 putative active site [active] 424182003546 putative substrate binding site [chemical binding]; other site 424182003547 HRDC domain; Region: HRDC; pfam00570 424182003548 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 424182003549 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182003550 putative substrate translocation pore; other site 424182003551 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 424182003552 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 424182003553 dimer interface [polypeptide binding]; other site 424182003554 anticodon binding site; other site 424182003555 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 424182003556 homodimer interface [polypeptide binding]; other site 424182003557 motif 1; other site 424182003558 active site 424182003559 motif 2; other site 424182003560 GAD domain; Region: GAD; pfam02938 424182003561 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 424182003562 active site 424182003563 motif 3; other site 424182003564 Predicted membrane protein [Function unknown]; Region: COG4129 424182003565 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 424182003566 Inner membrane protein CreD; Region: CreD; cl01844 424182003567 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 424182003568 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 424182003569 CAP-like domain; other site 424182003570 active site 424182003571 primary dimer interface [polypeptide binding]; other site 424182003572 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 424182003573 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 424182003574 putative addiction module antidote; Region: doc_partner; TIGR02609 424182003575 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 424182003576 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 424182003577 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 424182003578 Predicted membrane protein/domain [Function unknown]; Region: COG1714 424182003579 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 424182003580 dimer interface [polypeptide binding]; other site 424182003581 allosteric magnesium binding site [ion binding]; other site 424182003582 active site 424182003583 aspartate-rich active site metal binding site; other site 424182003584 Schiff base residues; other site 424182003585 Transcriptional regulators [Transcription]; Region: MarR; COG1846 424182003586 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 424182003587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 424182003588 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182003589 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182003590 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 424182003591 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 424182003592 dimer interface [polypeptide binding]; other site 424182003593 active site 424182003594 glycine-pyridoxal phosphate binding site [chemical binding]; other site 424182003595 folate binding site [chemical binding]; other site 424182003596 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 424182003597 ATP cone domain; Region: ATP-cone; pfam03477 424182003598 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 424182003599 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 424182003600 catalytic motif [active] 424182003601 Zn binding site [ion binding]; other site 424182003602 RibD C-terminal domain; Region: RibD_C; cl17279 424182003603 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 424182003604 Lumazine binding domain; Region: Lum_binding; pfam00677 424182003605 Lumazine binding domain; Region: Lum_binding; pfam00677 424182003606 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182003607 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 424182003608 homopentamer interface [polypeptide binding]; other site 424182003609 active site 424182003610 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 424182003611 putative RNA binding site [nucleotide binding]; other site 424182003612 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 424182003613 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 424182003614 putative substrate translocation pore; other site 424182003615 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 424182003616 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 424182003617 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 424182003618 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 424182003619 Uncharacterized conserved protein [Function unknown]; Region: COG5452 424182003620 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 424182003621 putative phosphate acyltransferase; Provisional; Region: PRK05331 424182003622 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 424182003623 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 424182003624 dimer interface [polypeptide binding]; other site 424182003625 active site 424182003626 CoA binding pocket [chemical binding]; other site 424182003627 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 424182003628 IHF dimer interface [polypeptide binding]; other site 424182003629 IHF - DNA interface [nucleotide binding]; other site 424182003630 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 424182003631 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 424182003632 DNA binding residues [nucleotide binding] 424182003633 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 424182003634 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 424182003635 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 424182003636 metal-binding site [ion binding] 424182003637 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 424182003638 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 424182003639 metal-binding site [ion binding] 424182003640 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 424182003641 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 424182003642 catalytic loop [active] 424182003643 iron binding site [ion binding]; other site 424182003644 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 424182003645 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 424182003646 DNA binding residues [nucleotide binding] 424182003647 dimer interface [polypeptide binding]; other site 424182003648 copper binding site [ion binding]; other site 424182003649 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182003650 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182003651 dimer interface [polypeptide binding]; other site 424182003652 conserved gate region; other site 424182003653 putative PBP binding loops; other site 424182003654 ABC-ATPase subunit interface; other site 424182003655 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 424182003656 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182003657 dimer interface [polypeptide binding]; other site 424182003658 conserved gate region; other site 424182003659 putative PBP binding loops; other site 424182003660 ABC-ATPase subunit interface; other site 424182003661 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 424182003662 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182003663 Walker A/P-loop; other site 424182003664 ATP binding site [chemical binding]; other site 424182003665 Q-loop/lid; other site 424182003666 ABC transporter signature motif; other site 424182003667 Walker B; other site 424182003668 D-loop; other site 424182003669 H-loop/switch region; other site 424182003670 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182003671 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 424182003672 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182003673 Walker A/P-loop; other site 424182003674 ATP binding site [chemical binding]; other site 424182003675 Q-loop/lid; other site 424182003676 ABC transporter signature motif; other site 424182003677 Walker B; other site 424182003678 D-loop; other site 424182003679 H-loop/switch region; other site 424182003680 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182003681 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182003682 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_3; cd08490 424182003683 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 424182003684 metal-binding site [ion binding] 424182003685 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 424182003686 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 424182003687 threonine dehydratase; Validated; Region: PRK08639 424182003688 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 424182003689 tetramer interface [polypeptide binding]; other site 424182003690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182003691 catalytic residue [active] 424182003692 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 424182003693 Uncharacterized conserved protein [Function unknown]; Region: COG5453 424182003694 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 424182003695 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 424182003696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182003697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182003698 LysR substrate binding domain; Region: LysR_substrate; pfam03466 424182003699 dimerization interface [polypeptide binding]; other site 424182003700 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 424182003701 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 424182003702 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 424182003703 active site 424182003704 metal binding site [ion binding]; metal-binding site 424182003705 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 424182003706 PilZ domain; Region: PilZ; pfam07238 424182003707 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 424182003708 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 424182003709 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 424182003710 RibD C-terminal domain; Region: RibD_C; cl17279 424182003711 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 424182003712 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 424182003713 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 424182003714 active site residue [active] 424182003715 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 424182003716 active site residue [active] 424182003717 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 424182003718 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 424182003719 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 424182003720 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 424182003721 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 424182003722 dimer interface [polypeptide binding]; other site 424182003723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182003724 catalytic residue [active] 424182003725 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 424182003726 DNA photolyase; Region: DNA_photolyase; pfam00875 424182003727 Protein of unknown function (DUF982); Region: DUF982; pfam06169 424182003728 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 424182003729 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 424182003730 DNA binding site [nucleotide binding] 424182003731 active site 424182003732 TIGR02594 family protein; Region: TIGR02594 424182003733 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 424182003734 Predicted membrane protein [Function unknown]; Region: COG1238 424182003735 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 424182003736 Putative phosphatase (DUF442); Region: DUF442; cl17385 424182003737 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 424182003738 CoA-binding domain; Region: CoA_binding_3; pfam13727 424182003739 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 424182003740 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182003741 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 424182003742 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 424182003743 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 424182003744 SLBB domain; Region: SLBB; pfam10531 424182003745 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 424182003746 DNA damage checkpoint protein; Region: LCD1; pfam09798 424182003747 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 424182003748 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 424182003749 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 424182003750 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 424182003751 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 424182003752 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 424182003753 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 424182003754 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 424182003755 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 424182003756 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 424182003757 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 424182003758 agmatinase; Region: agmatinase; TIGR01230 424182003759 oligomer interface [polypeptide binding]; other site 424182003760 putative active site [active] 424182003761 Mn binding site [ion binding]; other site 424182003762 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 424182003763 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 424182003764 23S rRNA interface [nucleotide binding]; other site 424182003765 L3 interface [polypeptide binding]; other site 424182003766 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 424182003767 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 424182003768 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 424182003769 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 424182003770 homodimer interface [polypeptide binding]; other site 424182003771 substrate-cofactor binding pocket; other site 424182003772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182003773 catalytic residue [active] 424182003774 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 424182003775 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 424182003776 dimerization interface [polypeptide binding]; other site 424182003777 putative DNA binding site [nucleotide binding]; other site 424182003778 putative Zn2+ binding site [ion binding]; other site 424182003779 short chain dehydrogenase; Provisional; Region: PRK06500 424182003780 classical (c) SDRs; Region: SDR_c; cd05233 424182003781 NAD(P) binding site [chemical binding]; other site 424182003782 active site 424182003783 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 424182003784 Cytochrome P450; Region: p450; cl12078 424182003785 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182003786 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182003787 metal binding site [ion binding]; metal-binding site 424182003788 active site 424182003789 I-site; other site 424182003790 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 424182003791 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 424182003792 oligomer interface [polypeptide binding]; other site 424182003793 active site residues [active] 424182003794 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 424182003795 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 424182003796 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 424182003797 Walker A motif; other site 424182003798 ATP binding site [chemical binding]; other site 424182003799 Walker B motif; other site 424182003800 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 424182003801 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 424182003802 Found in ATP-dependent protease La (LON); Region: LON; smart00464 424182003803 Found in ATP-dependent protease La (LON); Region: LON; smart00464 424182003804 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 424182003805 Walker A motif; other site 424182003806 ATP binding site [chemical binding]; other site 424182003807 Walker B motif; other site 424182003808 arginine finger; other site 424182003809 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 424182003810 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 424182003811 IHF dimer interface [polypeptide binding]; other site 424182003812 IHF - DNA interface [nucleotide binding]; other site 424182003813 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 424182003814 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 424182003815 NADH dehydrogenase subunit B; Validated; Region: PRK06411 424182003816 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 424182003817 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 424182003818 Uncharacterized conserved protein [Function unknown]; Region: COG3791 424182003819 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 424182003820 NADH dehydrogenase subunit D; Validated; Region: PRK06075 424182003821 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 424182003822 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 424182003823 putative dimer interface [polypeptide binding]; other site 424182003824 [2Fe-2S] cluster binding site [ion binding]; other site 424182003825 Uncharacterized conserved protein [Function unknown]; Region: COG3743 424182003826 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 424182003827 SLBB domain; Region: SLBB; pfam10531 424182003828 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 424182003829 NADH dehydrogenase subunit G; Validated; Region: PRK09130 424182003830 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 424182003831 catalytic loop [active] 424182003832 iron binding site [ion binding]; other site 424182003833 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 424182003834 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 424182003835 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 424182003836 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 424182003837 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 424182003838 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 424182003839 4Fe-4S binding domain; Region: Fer4; pfam00037 424182003840 4Fe-4S binding domain; Region: Fer4; pfam00037 424182003841 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 424182003842 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 424182003843 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 424182003844 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 424182003845 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 424182003846 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 424182003847 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 424182003848 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 424182003849 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 424182003850 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 424182003851 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 424182003852 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 424182003853 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 424182003854 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 424182003855 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 424182003856 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 424182003857 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 424182003858 Predicted secreted protein [Function unknown]; Region: COG5454 424182003859 prolyl-tRNA synthetase; Provisional; Region: PRK12325 424182003860 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 424182003861 dimer interface [polypeptide binding]; other site 424182003862 motif 1; other site 424182003863 active site 424182003864 motif 2; other site 424182003865 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 424182003866 active site 424182003867 motif 3; other site 424182003868 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 424182003869 anticodon binding site; other site 424182003870 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 424182003871 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 424182003872 FtsX-like permease family; Region: FtsX; pfam02687 424182003873 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 424182003874 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 424182003875 Walker A/P-loop; other site 424182003876 ATP binding site [chemical binding]; other site 424182003877 Q-loop/lid; other site 424182003878 ABC transporter signature motif; other site 424182003879 Walker B; other site 424182003880 D-loop; other site 424182003881 H-loop/switch region; other site 424182003882 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 424182003883 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 424182003884 putative active site [active] 424182003885 putative PHP Thumb interface [polypeptide binding]; other site 424182003886 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 424182003887 generic binding surface II; other site 424182003888 generic binding surface I; other site 424182003889 hypothetical protein; Provisional; Region: PRK06132 424182003890 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182003891 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182003892 DNA polymerase IV; Provisional; Region: PRK02794 424182003893 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 424182003894 active site 424182003895 DNA binding site [nucleotide binding] 424182003896 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 424182003897 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 424182003898 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 424182003899 active site 424182003900 phosphorylation site [posttranslational modification] 424182003901 intermolecular recognition site; other site 424182003902 dimerization interface [polypeptide binding]; other site 424182003903 response regulator PleD; Reviewed; Region: pleD; PRK09581 424182003904 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 424182003905 active site 424182003906 phosphorylation site [posttranslational modification] 424182003907 intermolecular recognition site; other site 424182003908 dimerization interface [polypeptide binding]; other site 424182003909 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 424182003910 active site 424182003911 phosphorylation site [posttranslational modification] 424182003912 intermolecular recognition site; other site 424182003913 dimerization interface [polypeptide binding]; other site 424182003914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182003915 metal binding site [ion binding]; metal-binding site 424182003916 active site 424182003917 I-site; other site 424182003918 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 424182003919 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182003920 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 424182003921 putative substrate translocation pore; other site 424182003922 NUDIX domain; Region: NUDIX; pfam00293 424182003923 hypothetical protein; Provisional; Region: PRK05978 424182003924 ribonuclease R; Region: RNase_R; TIGR02063 424182003925 RNB domain; Region: RNB; pfam00773 424182003926 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 424182003927 RNA binding site [nucleotide binding]; other site 424182003928 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 424182003929 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 424182003930 active site 424182003931 interdomain interaction site; other site 424182003932 putative metal-binding site [ion binding]; other site 424182003933 nucleotide binding site [chemical binding]; other site 424182003934 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 424182003935 domain I; other site 424182003936 DNA binding groove [nucleotide binding] 424182003937 phosphate binding site [ion binding]; other site 424182003938 domain II; other site 424182003939 domain III; other site 424182003940 nucleotide binding site [chemical binding]; other site 424182003941 catalytic site [active] 424182003942 domain IV; other site 424182003943 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 424182003944 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 424182003945 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 424182003946 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 424182003947 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 424182003948 DNA protecting protein DprA; Region: dprA; TIGR00732 424182003949 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 424182003950 dihydroorotase; Validated; Region: PRK09059 424182003951 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 424182003952 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 424182003953 active site 424182003954 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 424182003955 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 424182003956 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 424182003957 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 424182003958 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 424182003959 active site 424182003960 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 424182003961 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182003962 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182003963 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 424182003964 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 424182003965 PhnA protein; Region: PhnA; pfam03831 424182003966 metal-dependent hydrolase; Provisional; Region: PRK00685 424182003967 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 424182003968 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 424182003969 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 424182003970 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 424182003971 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 424182003972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182003973 Coenzyme A binding pocket [chemical binding]; other site 424182003974 hypothetical protein; Provisional; Region: PRK13687 424182003975 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 424182003976 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182003977 Coenzyme A binding pocket [chemical binding]; other site 424182003978 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component 424182003979 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 424182003980 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 424182003981 GatB domain; Region: GatB_Yqey; smart00845 424182003982 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 424182003983 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182003984 Coenzyme A binding pocket [chemical binding]; other site 424182003985 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 424182003986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182003987 Coenzyme A binding pocket [chemical binding]; other site 424182003988 NADH dehydrogenase; Validated; Region: PRK08183 424182003989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 424182003990 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 424182003991 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 424182003992 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 424182003993 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 424182003994 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 424182003995 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 424182003996 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 424182003997 carboxyltransferase (CT) interaction site; other site 424182003998 biotinylation site [posttranslational modification]; other site 424182003999 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 424182004000 Dehydroquinase class II; Region: DHquinase_II; pfam01220 424182004001 trimer interface [polypeptide binding]; other site 424182004002 active site 424182004003 dimer interface [polypeptide binding]; other site 424182004004 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 424182004005 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 424182004006 catalytic residues [active] 424182004007 aspartate aminotransferase; Provisional; Region: PRK05764 424182004008 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 424182004009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182004010 homodimer interface [polypeptide binding]; other site 424182004011 catalytic residue [active] 424182004012 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 424182004013 dimerization interface [polypeptide binding]; other site 424182004014 putative DNA binding site [nucleotide binding]; other site 424182004015 Transcriptional regulators [Transcription]; Region: MarR; COG1846 424182004016 putative Zn2+ binding site [ion binding]; other site 424182004017 NIPSNAP; Region: NIPSNAP; pfam07978 424182004018 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 424182004019 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 424182004020 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 424182004021 putative NAD(P) binding site [chemical binding]; other site 424182004022 putative active site [active] 424182004023 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 424182004024 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 424182004025 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 424182004026 AMIN domain; Region: AMIN; pfam11741 424182004027 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 424182004028 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 424182004029 active site 424182004030 metal binding site [ion binding]; metal-binding site 424182004031 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 424182004032 Transglycosylase; Region: Transgly; pfam00912 424182004033 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 424182004034 peptide chain release factor 2; Provisional; Region: PRK07342 424182004035 This domain is found in peptide chain release factors; Region: PCRF; smart00937 424182004036 RF-1 domain; Region: RF-1; pfam00472 424182004037 Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PncA; COG1335 424182004038 catalytic triad [active] 424182004039 conserved cis-peptide bond; other site 424182004040 ATP-NAD kinase; Region: NAD_kinase; pfam01513 424182004041 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 424182004042 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 424182004043 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 424182004044 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; cl00086 424182004045 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 424182004046 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 424182004047 catalytic loop [active] 424182004048 iron binding site [ion binding]; other site 424182004049 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 424182004050 dihydropteroate synthase; Region: DHPS; TIGR01496 424182004051 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 424182004052 substrate binding pocket [chemical binding]; other site 424182004053 dimer interface [polypeptide binding]; other site 424182004054 inhibitor binding site; inhibition site 424182004055 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 424182004056 homooctamer interface [polypeptide binding]; other site 424182004057 active site 424182004058 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 424182004059 catalytic center binding site [active] 424182004060 ATP binding site [chemical binding]; other site 424182004061 Predicted membrane protein [Function unknown]; Region: COG3768 424182004062 Domain of unknown function (DUF697); Region: DUF697; cl12064 424182004063 Predicted ATPase [General function prediction only]; Region: COG3106 424182004064 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 424182004065 catalytic core [active] 424182004066 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 424182004067 PAS domain; Region: PAS_9; pfam13426 424182004068 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 424182004069 PAS domain; Region: PAS; smart00091 424182004070 putative active site [active] 424182004071 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182004072 heme pocket [chemical binding]; other site 424182004073 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 424182004074 dimer interface [polypeptide binding]; other site 424182004075 phosphorylation site [posttranslational modification] 424182004076 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 424182004077 ATP binding site [chemical binding]; other site 424182004078 Mg2+ binding site [ion binding]; other site 424182004079 G-X-G motif; other site 424182004080 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 424182004081 Response regulator receiver domain; Region: Response_reg; pfam00072 424182004082 active site 424182004083 phosphorylation site [posttranslational modification] 424182004084 intermolecular recognition site; other site 424182004085 dimerization interface [polypeptide binding]; other site 424182004086 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 424182004087 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 424182004088 Walker A motif; other site 424182004089 ATP binding site [chemical binding]; other site 424182004090 Walker B motif; other site 424182004091 arginine finger; other site 424182004092 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 424182004093 Walker A motif; other site 424182004094 ATP binding site [chemical binding]; other site 424182004095 Walker B motif; other site 424182004096 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 424182004097 AzlC protein; Region: AzlC; pfam03591 424182004098 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 424182004099 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 424182004100 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182004101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182004102 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 424182004103 dimerization interface [polypeptide binding]; other site 424182004104 Uncharacterized conserved protein [Function unknown]; Region: COG3665 424182004105 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 424182004106 HIT family signature motif; other site 424182004107 catalytic residue [active] 424182004108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 424182004109 Protein of unknown function, DUF482; Region: DUF482; pfam04339 424182004110 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 424182004111 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 424182004112 putative active site [active] 424182004113 catalytic site [active] 424182004114 putative metal binding site [ion binding]; other site 424182004115 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 424182004116 homotrimer interaction site [polypeptide binding]; other site 424182004117 putative active site [active] 424182004118 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 424182004119 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 424182004120 rRNA interaction site [nucleotide binding]; other site 424182004121 S8 interaction site; other site 424182004122 putative laminin-1 binding site; other site 424182004123 elongation factor Ts; Provisional; Region: tsf; PRK09377 424182004124 UBA/TS-N domain; Region: UBA; pfam00627 424182004125 Elongation factor TS; Region: EF_TS; pfam00889 424182004126 Elongation factor TS; Region: EF_TS; pfam00889 424182004127 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 424182004128 putative nucleotide binding site [chemical binding]; other site 424182004129 uridine monophosphate binding site [chemical binding]; other site 424182004130 homohexameric interface [polypeptide binding]; other site 424182004131 ribosome recycling factor; Reviewed; Region: frr; PRK00083 424182004132 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 424182004133 hinge region; other site 424182004134 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 424182004135 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 424182004136 catalytic residue [active] 424182004137 putative FPP diphosphate binding site; other site 424182004138 putative FPP binding hydrophobic cleft; other site 424182004139 dimer interface [polypeptide binding]; other site 424182004140 putative IPP diphosphate binding site; other site 424182004141 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 424182004142 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 424182004143 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 424182004144 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 424182004145 active site 424182004146 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 424182004147 protein binding site [polypeptide binding]; other site 424182004148 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 424182004149 putative substrate binding region [chemical binding]; other site 424182004150 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 424182004151 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 424182004152 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 424182004153 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 424182004154 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 424182004155 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 424182004156 Surface antigen; Region: Bac_surface_Ag; pfam01103 424182004157 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 424182004158 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 424182004159 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 424182004160 trimer interface [polypeptide binding]; other site 424182004161 active site 424182004162 UDP-GlcNAc binding site [chemical binding]; other site 424182004163 lipid binding site [chemical binding]; lipid-binding site 424182004164 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 424182004165 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 424182004166 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 424182004167 active site 424182004168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 424182004169 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 424182004170 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 424182004171 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 424182004172 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 424182004173 dimer interface [polypeptide binding]; other site 424182004174 active site 424182004175 citrylCoA binding site [chemical binding]; other site 424182004176 NADH binding [chemical binding]; other site 424182004177 cationic pore residues; other site 424182004178 oxalacetate/citrate binding site [chemical binding]; other site 424182004179 coenzyme A binding site [chemical binding]; other site 424182004180 catalytic triad [active] 424182004181 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 424182004182 Competence protein; Region: Competence; pfam03772 424182004183 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 424182004184 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182004185 putative C-terminal domain interface [polypeptide binding]; other site 424182004186 putative GSH binding site (G-site) [chemical binding]; other site 424182004187 putative dimer interface [polypeptide binding]; other site 424182004188 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 424182004189 putative N-terminal domain interface [polypeptide binding]; other site 424182004190 putative dimer interface [polypeptide binding]; other site 424182004191 putative substrate binding pocket (H-site) [chemical binding]; other site 424182004192 LexA repressor; Validated; Region: PRK00215 424182004193 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 424182004194 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 424182004195 Catalytic site [active] 424182004196 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 424182004197 RHS protein; Region: RHS; pfam03527 424182004198 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 424182004199 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 424182004200 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 424182004201 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 424182004202 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 424182004203 enolase; Provisional; Region: eno; PRK00077 424182004204 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 424182004205 dimer interface [polypeptide binding]; other site 424182004206 metal binding site [ion binding]; metal-binding site 424182004207 substrate binding pocket [chemical binding]; other site 424182004208 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 424182004209 Septum formation initiator; Region: DivIC; pfam04977 424182004210 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 424182004211 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 424182004212 tetramer interface [polypeptide binding]; other site 424182004213 TPP-binding site [chemical binding]; other site 424182004214 heterodimer interface [polypeptide binding]; other site 424182004215 phosphorylation loop region [posttranslational modification] 424182004216 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 424182004217 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 424182004218 E3 interaction surface; other site 424182004219 lipoyl attachment site [posttranslational modification]; other site 424182004220 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 424182004221 alpha subunit interface [polypeptide binding]; other site 424182004222 TPP binding site [chemical binding]; other site 424182004223 heterodimer interface [polypeptide binding]; other site 424182004224 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 424182004225 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 424182004226 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 424182004227 E3 interaction surface; other site 424182004228 lipoyl attachment site [posttranslational modification]; other site 424182004229 e3 binding domain; Region: E3_binding; pfam02817 424182004230 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 424182004231 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 424182004232 active site 424182004233 catalytic triad [active] 424182004234 oxyanion hole [active] 424182004235 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 424182004236 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 424182004237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182004238 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 424182004239 Predicted membrane protein [Function unknown]; Region: COG2261 424182004240 lipoyl synthase; Provisional; Region: PRK05481 424182004241 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 424182004242 FeS/SAM binding site; other site 424182004243 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182004244 EamA-like transporter family; Region: EamA; pfam00892 424182004245 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182004246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182004247 AAA domain; Region: AAA_17; pfam13207 424182004248 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 424182004249 putative coenzyme Q binding site [chemical binding]; other site 424182004250 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 424182004251 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 424182004252 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 424182004253 substrate binding site; other site 424182004254 dimer interface; other site 424182004255 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 424182004256 homotrimer interaction site [polypeptide binding]; other site 424182004257 zinc binding site [ion binding]; other site 424182004258 CDP-binding sites; other site 424182004259 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 424182004260 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 424182004261 FMN binding site [chemical binding]; other site 424182004262 active site 424182004263 catalytic residues [active] 424182004264 substrate binding site [chemical binding]; other site 424182004265 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 424182004266 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 424182004267 dimer interface [polypeptide binding]; other site 424182004268 phosphorylation site [posttranslational modification] 424182004269 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 424182004270 ATP binding site [chemical binding]; other site 424182004271 Mg2+ binding site [ion binding]; other site 424182004272 G-X-G motif; other site 424182004273 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 424182004274 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 424182004275 active site 424182004276 phosphorylation site [posttranslational modification] 424182004277 intermolecular recognition site; other site 424182004278 dimerization interface [polypeptide binding]; other site 424182004279 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 424182004280 Walker A motif; other site 424182004281 ATP binding site [chemical binding]; other site 424182004282 Walker B motif; other site 424182004283 arginine finger; other site 424182004284 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 424182004285 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 424182004286 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 424182004287 dimerization interface [polypeptide binding]; other site 424182004288 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 424182004289 putative active site [active] 424182004290 heme pocket [chemical binding]; other site 424182004291 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 424182004292 dimer interface [polypeptide binding]; other site 424182004293 phosphorylation site [posttranslational modification] 424182004294 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 424182004295 ATP binding site [chemical binding]; other site 424182004296 Mg2+ binding site [ion binding]; other site 424182004297 G-X-G motif; other site 424182004298 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 424182004299 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 424182004300 active site 424182004301 phosphorylation site [posttranslational modification] 424182004302 intermolecular recognition site; other site 424182004303 dimerization interface [polypeptide binding]; other site 424182004304 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 424182004305 Walker A motif; other site 424182004306 ATP binding site [chemical binding]; other site 424182004307 Walker B motif; other site 424182004308 arginine finger; other site 424182004309 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 424182004310 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 424182004311 TrkA-N domain; Region: TrkA_N; pfam02254 424182004312 TrkA-C domain; Region: TrkA_C; pfam02080 424182004313 TrkA-N domain; Region: TrkA_N; pfam02254 424182004314 TrkA-C domain; Region: TrkA_C; pfam02080 424182004315 RNA-binding protein Hfq; Provisional; Region: PRK14091 424182004316 bacterial Hfq-like; Region: Hfq; cd01716 424182004317 hexamer interface [polypeptide binding]; other site 424182004318 Sm1 motif; other site 424182004319 RNA binding site [nucleotide binding]; other site 424182004320 Sm2 motif; other site 424182004321 bacterial Hfq-like; Region: Hfq; cd01716 424182004322 hexamer interface [polypeptide binding]; other site 424182004323 Sm1 motif; other site 424182004324 RNA binding site [nucleotide binding]; other site 424182004325 Sm2 motif; other site 424182004326 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 424182004327 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 424182004328 HflX GTPase family; Region: HflX; cd01878 424182004329 G1 box; other site 424182004330 GTP/Mg2+ binding site [chemical binding]; other site 424182004331 Switch I region; other site 424182004332 G2 box; other site 424182004333 G3 box; other site 424182004334 Switch II region; other site 424182004335 G4 box; other site 424182004336 G5 box; other site 424182004337 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182004338 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 424182004339 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 424182004340 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 424182004341 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 424182004342 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 424182004343 FixH; Region: FixH; pfam05751 424182004344 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 424182004345 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 424182004346 metal-binding site [ion binding] 424182004347 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 424182004348 Soluble P-type ATPase [General function prediction only]; Region: COG4087 424182004349 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 424182004350 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 424182004351 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 424182004352 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 424182004353 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 424182004354 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 424182004355 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182004356 active site 424182004357 catalytic tetrad [active] 424182004358 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 424182004359 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 424182004360 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182004361 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182004362 DNA binding site [nucleotide binding] 424182004363 domain linker motif; other site 424182004364 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 424182004365 ligand binding site [chemical binding]; other site 424182004366 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 424182004367 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 424182004368 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 424182004369 metal binding site [ion binding]; metal-binding site 424182004370 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 424182004371 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 424182004372 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 424182004373 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 424182004374 ABC-ATPase subunit interface; other site 424182004375 dimer interface [polypeptide binding]; other site 424182004376 putative PBP binding regions; other site 424182004377 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 424182004378 metal binding site 2 [ion binding]; metal-binding site 424182004379 putative DNA binding helix; other site 424182004380 metal binding site 1 [ion binding]; metal-binding site 424182004381 dimer interface [polypeptide binding]; other site 424182004382 structural Zn2+ binding site [ion binding]; other site 424182004383 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 424182004384 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 424182004385 trimer interface [polypeptide binding]; other site 424182004386 putative metal binding site [ion binding]; other site 424182004387 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 424182004388 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 424182004389 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 424182004390 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 424182004391 FMN binding site [chemical binding]; other site 424182004392 active site 424182004393 catalytic residues [active] 424182004394 substrate binding site [chemical binding]; other site 424182004395 Protein of unknown function DUF72; Region: DUF72; pfam01904 424182004396 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 424182004397 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 424182004398 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 424182004399 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 424182004400 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 424182004401 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 424182004402 dimer interface [polypeptide binding]; other site 424182004403 ssDNA binding site [nucleotide binding]; other site 424182004404 tetramer (dimer of dimers) interface [polypeptide binding]; other site 424182004405 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 424182004406 HPP family; Region: HPP; pfam04982 424182004407 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 424182004408 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 424182004409 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 424182004410 DNA gyrase subunit A; Validated; Region: PRK05560 424182004411 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 424182004412 CAP-like domain; other site 424182004413 active site 424182004414 primary dimer interface [polypeptide binding]; other site 424182004415 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 424182004416 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 424182004417 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 424182004418 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 424182004419 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 424182004420 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 424182004421 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 424182004422 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 424182004423 Sporulation related domain; Region: SPOR; pfam05036 424182004424 integrase; Provisional; Region: PRK09692 424182004425 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 424182004426 active site 424182004427 Int/Topo IB signature motif; other site 424182004428 AAA domain; Region: AAA_21; pfam13304 424182004429 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182004430 ABC transporter signature motif; other site 424182004431 Walker B; other site 424182004432 D-loop; other site 424182004433 H-loop/switch region; other site 424182004434 Transposase; Region: HTH_Tnp_1; cl17663 424182004435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182004436 HTH-like domain; Region: HTH_21; pfam13276 424182004437 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 424182004438 Integrase core domain; Region: rve; pfam00665 424182004439 Integrase core domain; Region: rve_3; pfam13683 424182004440 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182004441 Walker A/P-loop; other site 424182004442 ATP binding site [chemical binding]; other site 424182004443 Q-loop/lid; other site 424182004444 AIPR protein; Region: AIPR; pfam10592 424182004445 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 424182004446 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 424182004447 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 424182004448 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 424182004449 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 424182004450 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 424182004451 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 424182004452 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 424182004453 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 424182004454 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 424182004455 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 424182004456 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 424182004457 TMP-binding site; other site 424182004458 ATP-binding site [chemical binding]; other site 424182004459 DNA polymerase III subunit delta'; Validated; Region: PRK09112 424182004460 AAA ATPase domain; Region: AAA_16; pfam13191 424182004461 DNA polymerase III subunit delta'; Validated; Region: PRK08485 424182004462 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 424182004463 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 424182004464 active site 424182004465 HIGH motif; other site 424182004466 KMSKS motif; other site 424182004467 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 424182004468 tRNA binding surface [nucleotide binding]; other site 424182004469 anticodon binding site; other site 424182004470 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 424182004471 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 424182004472 active site 424182004473 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 424182004474 putative hydrolase; Provisional; Region: PRK02113 424182004475 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 424182004476 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 424182004477 Cl- selectivity filter; other site 424182004478 Cl- binding residues [ion binding]; other site 424182004479 pore gating glutamate residue; other site 424182004480 dimer interface [polypeptide binding]; other site 424182004481 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 424182004482 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 424182004483 Active site serine [active] 424182004484 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 424182004485 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 424182004486 putative C-terminal domain interface [polypeptide binding]; other site 424182004487 putative GSH binding site (G-site) [chemical binding]; other site 424182004488 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182004489 putative dimer interface [polypeptide binding]; other site 424182004490 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 424182004491 dimer interface [polypeptide binding]; other site 424182004492 N-terminal domain interface [polypeptide binding]; other site 424182004493 putative substrate binding pocket (H-site) [chemical binding]; other site 424182004494 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 424182004495 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 424182004496 dimer interface [polypeptide binding]; other site 424182004497 decamer (pentamer of dimers) interface [polypeptide binding]; other site 424182004498 catalytic triad [active] 424182004499 hypothetical protein; Validated; Region: PRK00124 424182004500 Predicted membrane protein [Function unknown]; Region: COG4291 424182004501 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 424182004502 S-formylglutathione hydrolase; Region: PLN02442 424182004503 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 424182004504 homotrimer interaction site [polypeptide binding]; other site 424182004505 putative active site [active] 424182004506 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 424182004507 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 424182004508 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 424182004509 motif II; other site 424182004510 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 424182004511 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 424182004512 S4 RNA-binding domain; Region: S4; smart00363 424182004513 RNA binding surface [nucleotide binding]; other site 424182004514 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 424182004515 active site 424182004516 camphor resistance protein CrcB; Provisional; Region: PRK14195 424182004517 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 424182004518 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 424182004519 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 424182004520 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 424182004521 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 424182004522 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 424182004523 lipoyl attachment site [posttranslational modification]; other site 424182004524 glycine dehydrogenase; Provisional; Region: PRK05367 424182004525 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 424182004526 tetramer interface [polypeptide binding]; other site 424182004527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182004528 catalytic residue [active] 424182004529 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 424182004530 tetramer interface [polypeptide binding]; other site 424182004531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182004532 catalytic residue [active] 424182004533 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 424182004534 Fasciclin domain; Region: Fasciclin; pfam02469 424182004535 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 424182004536 putative catalytic site [active] 424182004537 putative metal binding site [ion binding]; other site 424182004538 putative phosphate binding site [ion binding]; other site 424182004539 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 424182004540 putative catalytic site [active] 424182004541 putative phosphate binding site [ion binding]; other site 424182004542 putative metal binding site [ion binding]; other site 424182004543 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 424182004544 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182004545 putative substrate translocation pore; other site 424182004546 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 424182004547 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 424182004548 FAD binding pocket [chemical binding]; other site 424182004549 FAD binding motif [chemical binding]; other site 424182004550 phosphate binding motif [ion binding]; other site 424182004551 beta-alpha-beta structure motif; other site 424182004552 NAD binding pocket [chemical binding]; other site 424182004553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 424182004554 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 424182004555 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 424182004556 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 424182004557 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 424182004558 siroheme synthase; Provisional; Region: cysG; PRK10637 424182004559 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 424182004560 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 424182004561 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 424182004562 active site 424182004563 SAM binding site [chemical binding]; other site 424182004564 homodimer interface [polypeptide binding]; other site 424182004565 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 424182004566 nucleoside/Zn binding site; other site 424182004567 dimer interface [polypeptide binding]; other site 424182004568 catalytic motif [active] 424182004569 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 424182004570 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 424182004571 homodimer interface [polypeptide binding]; other site 424182004572 metal binding site [ion binding]; metal-binding site 424182004573 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 424182004574 homodimer interface [polypeptide binding]; other site 424182004575 active site 424182004576 putative chemical substrate binding site [chemical binding]; other site 424182004577 metal binding site [ion binding]; metal-binding site 424182004578 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 424182004579 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 424182004580 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 424182004581 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 424182004582 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 424182004583 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 424182004584 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 424182004585 Low-spin heme binding site [chemical binding]; other site 424182004586 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 424182004587 Putative water exit pathway; other site 424182004588 Binuclear center (active site) [active] 424182004589 Putative proton exit pathway; other site 424182004590 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 424182004591 homotrimer interface [polypeptide binding]; other site 424182004592 Walker A motif; other site 424182004593 GTP binding site [chemical binding]; other site 424182004594 Walker B motif; other site 424182004595 Predicted membrane protein [Function unknown]; Region: COG3821 424182004596 Predicted membrane protein [Function unknown]; Region: COG3503 424182004597 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 424182004598 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 424182004599 DNA binding residues [nucleotide binding] 424182004600 putative dimer interface [polypeptide binding]; other site 424182004601 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 424182004602 MgtE intracellular N domain; Region: MgtE_N; pfam03448 424182004603 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 424182004604 Divalent cation transporter; Region: MgtE; cl00786 424182004605 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 424182004606 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 424182004607 putative molybdopterin cofactor binding site [chemical binding]; other site 424182004608 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 424182004609 putative molybdopterin cofactor binding site; other site 424182004610 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 424182004611 active site 424182004612 catalytic residues [active] 424182004613 metal binding site [ion binding]; metal-binding site 424182004614 OsmC-like protein; Region: OsmC; cl00767 424182004615 PAS fold; Region: PAS_3; pfam08447 424182004616 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 424182004617 heme pocket [chemical binding]; other site 424182004618 putative active site [active] 424182004619 lipoate-protein ligase B; Provisional; Region: PRK14341 424182004620 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 424182004621 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 424182004622 putative NAD(P) binding site [chemical binding]; other site 424182004623 putative substrate binding site [chemical binding]; other site 424182004624 catalytic Zn binding site [ion binding]; other site 424182004625 structural Zn binding site [ion binding]; other site 424182004626 dimer interface [polypeptide binding]; other site 424182004627 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182004628 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 424182004629 substrate binding pocket [chemical binding]; other site 424182004630 substrate-Mg2+ binding site; other site 424182004631 aspartate-rich region 1; other site 424182004632 aspartate-rich region 2; other site 424182004633 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 424182004634 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 424182004635 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 424182004636 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 424182004637 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 424182004638 Protein export membrane protein; Region: SecD_SecF; pfam02355 424182004639 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 424182004640 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 424182004641 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 424182004642 Walker A motif; other site 424182004643 ATP binding site [chemical binding]; other site 424182004644 Walker B motif; other site 424182004645 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 424182004646 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 424182004647 NAD binding site [chemical binding]; other site 424182004648 catalytic Zn binding site [ion binding]; other site 424182004649 structural Zn binding site [ion binding]; other site 424182004650 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182004651 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182004652 Bacterial transcriptional repressor; Region: TetR; pfam13972 424182004653 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 424182004654 Cytochrome P450; Region: p450; pfam00067 424182004655 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 424182004656 serine acetyltransferase; Provisional; Region: cysE; PRK11132 424182004657 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 424182004658 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 424182004659 trimer interface [polypeptide binding]; other site 424182004660 active site 424182004661 substrate binding site [chemical binding]; other site 424182004662 CoA binding site [chemical binding]; other site 424182004663 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182004664 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182004665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 424182004666 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 424182004667 salicylate hydroxylase; Provisional; Region: PRK08163 424182004668 cystathionine beta-lyase; Provisional; Region: PRK05967 424182004669 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 424182004670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182004671 catalytic residue [active] 424182004672 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 424182004673 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 424182004674 substrate binding pocket [chemical binding]; other site 424182004675 membrane-bound complex binding site; other site 424182004676 hinge residues; other site 424182004677 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 424182004678 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182004679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182004680 dimer interface [polypeptide binding]; other site 424182004681 conserved gate region; other site 424182004682 putative PBP binding loops; other site 424182004683 ABC-ATPase subunit interface; other site 424182004684 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182004685 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182004686 dimer interface [polypeptide binding]; other site 424182004687 conserved gate region; other site 424182004688 putative PBP binding loops; other site 424182004689 ABC-ATPase subunit interface; other site 424182004690 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182004691 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182004692 Walker A/P-loop; other site 424182004693 ATP binding site [chemical binding]; other site 424182004694 Q-loop/lid; other site 424182004695 ABC transporter signature motif; other site 424182004696 Walker B; other site 424182004697 D-loop; other site 424182004698 H-loop/switch region; other site 424182004699 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 424182004700 DHH family; Region: DHH; pfam01368 424182004701 DHHA1 domain; Region: DHHA1; pfam02272 424182004702 homoserine dehydrogenase; Provisional; Region: PRK06349 424182004703 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 424182004704 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 424182004705 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 424182004706 aminotransferase; Validated; Region: PRK09148 424182004707 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 424182004708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182004709 homodimer interface [polypeptide binding]; other site 424182004710 catalytic residue [active] 424182004711 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 424182004712 active site 424182004713 hypothetical protein; Provisional; Region: PRK10621 424182004714 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 424182004715 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 424182004716 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 424182004717 putative acyl-acceptor binding pocket; other site 424182004718 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 424182004719 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 424182004720 putative NAD(P) binding site [chemical binding]; other site 424182004721 structural Zn binding site [ion binding]; other site 424182004722 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 424182004723 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 424182004724 dimer interface [polypeptide binding]; other site 424182004725 active site 424182004726 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 424182004727 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 424182004728 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 424182004729 active site 424182004730 active site 424182004731 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 424182004732 active site 2 [active] 424182004733 active site 1 [active] 424182004734 acyl carrier protein; Provisional; Region: PRK06508 424182004735 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 424182004736 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 424182004737 FeS/SAM binding site; other site 424182004738 HemN C-terminal domain; Region: HemN_C; pfam06969 424182004739 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 424182004740 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 424182004741 ligand binding site [chemical binding]; other site 424182004742 flexible hinge region; other site 424182004743 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 424182004744 putative switch regulator; other site 424182004745 non-specific DNA interactions [nucleotide binding]; other site 424182004746 DNA binding site [nucleotide binding] 424182004747 sequence specific DNA binding site [nucleotide binding]; other site 424182004748 putative cAMP binding site [chemical binding]; other site 424182004749 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 424182004750 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 424182004751 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 424182004752 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 424182004753 active site 424182004754 hypothetical protein; Reviewed; Region: PRK00024 424182004755 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 424182004756 MPN+ (JAMM) motif; other site 424182004757 Zinc-binding site [ion binding]; other site 424182004758 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 424182004759 TadE-like protein; Region: TadE; pfam07811 424182004760 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 424182004761 Predicted membrane protein [Function unknown]; Region: COG4655 424182004762 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 424182004763 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 424182004764 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 424182004765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182004766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182004767 glutathione reductase; Validated; Region: PRK06116 424182004768 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182004769 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 424182004770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 424182004771 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 424182004772 tetramer (dimer of dimers) interface [polypeptide binding]; other site 424182004773 active site 424182004774 dimer interface [polypeptide binding]; other site 424182004775 phosphoglycolate phosphatase; Provisional; Region: PRK13222 424182004776 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 424182004777 motif II; other site 424182004778 CHAT domain; Region: CHAT; cl17868 424182004779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 424182004780 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182004781 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182004782 fumarate hydratase; Reviewed; Region: fumC; PRK00485 424182004783 Class II fumarases; Region: Fumarase_classII; cd01362 424182004784 active site 424182004785 tetramer interface [polypeptide binding]; other site 424182004786 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 424182004787 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182004788 CTP synthetase; Validated; Region: pyrG; PRK05380 424182004789 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 424182004790 Catalytic site [active] 424182004791 active site 424182004792 UTP binding site [chemical binding]; other site 424182004793 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 424182004794 active site 424182004795 putative oxyanion hole; other site 424182004796 catalytic triad [active] 424182004797 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 424182004798 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 424182004799 triosephosphate isomerase; Provisional; Region: PRK14565 424182004800 substrate binding site [chemical binding]; other site 424182004801 dimer interface [polypeptide binding]; other site 424182004802 catalytic triad [active] 424182004803 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 424182004804 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 424182004805 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 424182004806 Mg2+ binding site [ion binding]; other site 424182004807 G-X-G motif; other site 424182004808 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 424182004809 anchoring element; other site 424182004810 dimer interface [polypeptide binding]; other site 424182004811 ATP binding site [chemical binding]; other site 424182004812 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 424182004813 active site 424182004814 metal binding site [ion binding]; metal-binding site 424182004815 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 424182004816 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182004817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182004818 NAD(P) binding site [chemical binding]; other site 424182004819 active site 424182004820 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 424182004821 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 424182004822 putative active site [active] 424182004823 catalytic site [active] 424182004824 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 424182004825 putative active site [active] 424182004826 catalytic site [active] 424182004827 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 424182004828 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 424182004829 active site 424182004830 phosphorylation site [posttranslational modification] 424182004831 intermolecular recognition site; other site 424182004832 dimerization interface [polypeptide binding]; other site 424182004833 Response regulator receiver domain; Region: Response_reg; pfam00072 424182004834 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 424182004835 active site 424182004836 phosphorylation site [posttranslational modification] 424182004837 intermolecular recognition site; other site 424182004838 dimerization interface [polypeptide binding]; other site 424182004839 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182004840 hydroxyglutarate oxidase; Provisional; Region: PRK11728 424182004841 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 424182004842 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 424182004843 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 424182004844 Mechanosensitive ion channel; Region: MS_channel; pfam00924 424182004845 Predicted membrane protein [Function unknown]; Region: COG2261 424182004846 Gram-negative bacterial tonB protein; Region: TonB; cl10048 424182004847 Predicted membrane protein [Function unknown]; Region: COG4125 424182004848 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 424182004849 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 424182004850 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 424182004851 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182004852 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 424182004853 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 424182004854 mce related protein; Region: MCE; pfam02470 424182004855 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 424182004856 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 424182004857 Walker A/P-loop; other site 424182004858 ATP binding site [chemical binding]; other site 424182004859 Q-loop/lid; other site 424182004860 ABC transporter signature motif; other site 424182004861 Walker B; other site 424182004862 D-loop; other site 424182004863 H-loop/switch region; other site 424182004864 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 424182004865 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 424182004866 Permease; Region: Permease; pfam02405 424182004867 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 424182004868 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 424182004869 active site 424182004870 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 424182004871 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 424182004872 putative active site [active] 424182004873 putative metal binding site [ion binding]; other site 424182004874 malic enzyme; Reviewed; Region: PRK12862 424182004875 Malic enzyme, N-terminal domain; Region: malic; pfam00390 424182004876 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 424182004877 putative NAD(P) binding site [chemical binding]; other site 424182004878 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 424182004879 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 424182004880 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 424182004881 putative FMN binding site [chemical binding]; other site 424182004882 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 424182004883 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 424182004884 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 424182004885 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182004886 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 424182004887 ligand binding site [chemical binding]; other site 424182004888 dimer interface [polypeptide binding]; other site 424182004889 NAD synthetase; Provisional; Region: PRK13981 424182004890 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 424182004891 multimer interface [polypeptide binding]; other site 424182004892 active site 424182004893 catalytic triad [active] 424182004894 protein interface 1 [polypeptide binding]; other site 424182004895 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 424182004896 homodimer interface [polypeptide binding]; other site 424182004897 NAD binding pocket [chemical binding]; other site 424182004898 ATP binding pocket [chemical binding]; other site 424182004899 Mg binding site [ion binding]; other site 424182004900 active-site loop [active] 424182004901 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 424182004902 Sulfatase; Region: Sulfatase; pfam00884 424182004903 Predicted membrane protein [Function unknown]; Region: COG4420 424182004904 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 424182004905 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 424182004906 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182004907 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 424182004908 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_HprK; cl00270 424182004909 active site 424182004910 nucleotide-binding site [chemical binding]; other site 424182004911 metal-binding site [ion binding] 424182004912 trigger factor; Provisional; Region: tig; PRK01490 424182004913 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 424182004914 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 424182004915 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 424182004916 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 424182004917 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 424182004918 Glucose inhibited division protein A; Region: GIDA; pfam01134 424182004919 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 424182004920 TadE-like protein; Region: TadE; pfam07811 424182004921 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 424182004922 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 424182004923 substrate binding site [chemical binding]; other site 424182004924 catalytic Zn binding site [ion binding]; other site 424182004925 NAD binding site [chemical binding]; other site 424182004926 structural Zn binding site [ion binding]; other site 424182004927 dimer interface [polypeptide binding]; other site 424182004928 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 424182004929 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 424182004930 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 424182004931 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 424182004932 acyl-activating enzyme (AAE) consensus motif; other site 424182004933 acyl-activating enzyme (AAE) consensus motif; other site 424182004934 putative AMP binding site [chemical binding]; other site 424182004935 putative active site [active] 424182004936 putative CoA binding site [chemical binding]; other site 424182004937 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 424182004938 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 424182004939 dimer interface [polypeptide binding]; other site 424182004940 active site 424182004941 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 424182004942 catalytic residues [active] 424182004943 substrate binding site [chemical binding]; other site 424182004944 aminodeoxychorismate synthase; Provisional; Region: PRK07508 424182004945 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 424182004946 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 424182004947 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 424182004948 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 424182004949 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 424182004950 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 424182004951 active site 424182004952 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 424182004953 active site 424182004954 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 424182004955 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 424182004956 active site 424182004957 (T/H)XGH motif; other site 424182004958 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 424182004959 SurA N-terminal domain; Region: SurA_N_3; cl07813 424182004960 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 424182004961 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 424182004962 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 424182004963 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 424182004964 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 424182004965 active site 424182004966 ribulose/triose binding site [chemical binding]; other site 424182004967 phosphate binding site [ion binding]; other site 424182004968 substrate (anthranilate) binding pocket [chemical binding]; other site 424182004969 product (indole) binding pocket [chemical binding]; other site 424182004970 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 424182004971 trimer interface [polypeptide binding]; other site 424182004972 dimer interface [polypeptide binding]; other site 424182004973 putative active site [active] 424182004974 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 424182004975 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 424182004976 dimer interface [polypeptide binding]; other site 424182004977 putative functional site; other site 424182004978 putative MPT binding site; other site 424182004979 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182004980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182004981 metal binding site [ion binding]; metal-binding site 424182004982 active site 424182004983 I-site; other site 424182004984 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 424182004985 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 424182004986 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 424182004987 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 424182004988 TrkA-N domain; Region: TrkA_N; pfam02254 424182004989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 424182004990 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 424182004991 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 424182004992 FeS/SAM binding site; other site 424182004993 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 424182004994 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182004995 EamA-like transporter family; Region: EamA; pfam00892 424182004996 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 424182004997 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182004998 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 424182004999 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 424182005000 GTP binding site; other site 424182005001 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 424182005002 Walker A motif; other site 424182005003 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 424182005004 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 424182005005 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 424182005006 Peptidase family M23; Region: Peptidase_M23; pfam01551 424182005007 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 424182005008 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 424182005009 S-adenosylmethionine binding site [chemical binding]; other site 424182005010 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 424182005011 seryl-tRNA synthetase; Provisional; Region: PRK05431 424182005012 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 424182005013 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 424182005014 dimer interface [polypeptide binding]; other site 424182005015 active site 424182005016 motif 1; other site 424182005017 motif 2; other site 424182005018 motif 3; other site 424182005019 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 424182005020 sec-independent translocase; Provisional; Region: PRK00708 424182005021 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 424182005022 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 424182005023 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 424182005024 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 424182005025 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 424182005026 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 424182005027 Sporulation related domain; Region: SPOR; pfam05036 424182005028 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 424182005029 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 424182005030 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 424182005031 active site 424182005032 HIGH motif; other site 424182005033 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 424182005034 KMSK motif region; other site 424182005035 tRNA binding surface [nucleotide binding]; other site 424182005036 DALR anticodon binding domain; Region: DALR_1; smart00836 424182005037 anticodon binding site; other site 424182005038 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 424182005039 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 424182005040 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 424182005041 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 424182005042 putative catalytic site [active] 424182005043 putative phosphate binding site [ion binding]; other site 424182005044 active site 424182005045 metal binding site A [ion binding]; metal-binding site 424182005046 DNA binding site [nucleotide binding] 424182005047 putative AP binding site [nucleotide binding]; other site 424182005048 putative metal binding site B [ion binding]; other site 424182005049 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 424182005050 Sel1-like repeats; Region: SEL1; smart00671 424182005051 Sel1-like repeats; Region: SEL1; smart00671 424182005052 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 424182005053 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 424182005054 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 424182005055 HIGH motif; other site 424182005056 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 424182005057 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 424182005058 active site 424182005059 KMSKS motif; other site 424182005060 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 424182005061 tRNA binding surface [nucleotide binding]; other site 424182005062 anticodon binding site; other site 424182005063 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 424182005064 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 424182005065 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 424182005066 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 424182005067 S-adenosylmethionine binding site [chemical binding]; other site 424182005068 Protein of unknown function (DUF982); Region: DUF982; pfam06169 424182005069 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 424182005070 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 424182005071 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 424182005072 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 424182005073 putative MPT binding site; other site 424182005074 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 424182005075 Ligand Binding Site [chemical binding]; other site 424182005076 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 424182005077 active site 424182005078 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 424182005079 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 424182005080 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 424182005081 Transcriptional regulator; Region: Transcrip_reg; cl00361 424182005082 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 424182005083 active site 424182005084 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 424182005085 TSCPD domain; Region: TSCPD; pfam12637 424182005086 Protein of unknown function (DUF497); Region: DUF497; pfam04365 424182005087 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 424182005088 non-specific DNA binding site [nucleotide binding]; other site 424182005089 salt bridge; other site 424182005090 sequence-specific DNA binding site [nucleotide binding]; other site 424182005091 manganese transport protein MntH; Reviewed; Region: PRK00701 424182005092 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 424182005093 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182005094 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 424182005095 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 424182005096 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182005097 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 424182005098 Walker A/P-loop; other site 424182005099 ATP binding site [chemical binding]; other site 424182005100 Q-loop/lid; other site 424182005101 ABC transporter signature motif; other site 424182005102 Walker B; other site 424182005103 D-loop; other site 424182005104 H-loop/switch region; other site 424182005105 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 424182005106 Domain of unknown function DUF20; Region: UPF0118; pfam01594 424182005107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182005108 Coenzyme A binding pocket [chemical binding]; other site 424182005109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 424182005110 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 424182005111 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 424182005112 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 424182005113 putative FMN binding site [chemical binding]; other site 424182005114 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 424182005115 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 424182005116 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 424182005117 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 424182005118 active site 424182005119 dimer interface [polypeptide binding]; other site 424182005120 motif 1; other site 424182005121 motif 2; other site 424182005122 motif 3; other site 424182005123 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 424182005124 anticodon binding site; other site 424182005125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 424182005126 hypothetical protein; Validated; Region: PRK00041 424182005127 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 424182005128 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 424182005129 trimerization site [polypeptide binding]; other site 424182005130 active site 424182005131 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 424182005132 GTP cyclohydrolase I; Provisional; Region: PLN03044 424182005133 active site 424182005134 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 424182005135 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 424182005136 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 424182005137 nucleophile elbow; other site 424182005138 FOG: CBS domain [General function prediction only]; Region: COG0517 424182005139 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 424182005140 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 424182005141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 424182005142 PAS domain; Region: PAS_5; pfam07310 424182005143 PilZ domain; Region: PilZ; pfam07238 424182005144 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 424182005145 Uncharacterized conserved protein [Function unknown]; Region: COG5458 424182005146 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 424182005147 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 424182005148 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 424182005149 Predicted periplasmic protein [Function unknown]; Region: COG3698 424182005150 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 424182005151 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 424182005152 putative substrate binding site [chemical binding]; other site 424182005153 putative active site [active] 424182005154 putative cosubstrate binding site; other site 424182005155 catalytic site [active] 424182005156 5,10-methylenetetrahydrofolate reductase [Amino acid transport and metabolism]; Region: MetF; COG0685 424182005157 FAD binding site [chemical binding]; other site 424182005158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182005159 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 424182005160 dimerization interface [polypeptide binding]; other site 424182005161 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 424182005162 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 424182005163 conserved cys residue [active] 424182005164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182005165 Uncharacterized conserved protein [Function unknown]; Region: COG0062 424182005166 putative carbohydrate kinase; Provisional; Region: PRK10565 424182005167 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 424182005168 putative substrate binding site [chemical binding]; other site 424182005169 putative ATP binding site [chemical binding]; other site 424182005170 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 424182005171 Nitrogen regulatory protein P-II; Region: P-II; smart00938 424182005172 glutamine synthetase; Provisional; Region: glnA; PRK09469 424182005173 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 424182005174 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 424182005175 EamA-like transporter family; Region: EamA; pfam00892 424182005176 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 424182005177 Uncharacterized conserved protein [Function unknown]; Region: COG3785 424182005178 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 424182005179 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 424182005180 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 424182005181 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 424182005182 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 424182005183 catalytic residues [active] 424182005184 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182005185 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 424182005186 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 424182005187 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 424182005188 ATP binding site [chemical binding]; other site 424182005189 putative Mg++ binding site [ion binding]; other site 424182005190 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 424182005191 nucleotide binding region [chemical binding]; other site 424182005192 ATP-binding site [chemical binding]; other site 424182005193 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 424182005194 Uncharacterized conserved protein [Function unknown]; Region: COG2938 424182005195 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 424182005196 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 424182005197 generic binding surface II; other site 424182005198 ssDNA binding site; other site 424182005199 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 424182005200 ATP binding site [chemical binding]; other site 424182005201 putative Mg++ binding site [ion binding]; other site 424182005202 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 424182005203 nucleotide binding region [chemical binding]; other site 424182005204 ATP-binding site [chemical binding]; other site 424182005205 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 424182005206 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 424182005207 putative active site [active] 424182005208 Uncharacterized conserved protein [Function unknown]; Region: COG2928 424182005209 putative acetyltransferase; Provisional; Region: PRK03624 424182005210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182005211 Coenzyme A binding pocket [chemical binding]; other site 424182005212 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 424182005213 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 424182005214 glutaminase active site [active] 424182005215 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 424182005216 dimer interface [polypeptide binding]; other site 424182005217 active site 424182005218 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 424182005219 dimer interface [polypeptide binding]; other site 424182005220 active site 424182005221 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 424182005222 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 424182005223 Substrate binding site; other site 424182005224 Mg++ binding site; other site 424182005225 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 424182005226 active site 424182005227 substrate binding site [chemical binding]; other site 424182005228 CoA binding site [chemical binding]; other site 424182005229 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182005230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182005231 DNA-binding site [nucleotide binding]; DNA binding site 424182005232 FCD domain; Region: FCD; pfam07729 424182005233 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 424182005234 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 424182005235 putative ligand binding site [chemical binding]; other site 424182005236 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182005237 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 424182005238 TM-ABC transporter signature motif; other site 424182005239 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182005240 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 424182005241 TM-ABC transporter signature motif; other site 424182005242 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 424182005243 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182005244 Walker A/P-loop; other site 424182005245 ATP binding site [chemical binding]; other site 424182005246 Q-loop/lid; other site 424182005247 ABC transporter signature motif; other site 424182005248 Walker B; other site 424182005249 D-loop; other site 424182005250 H-loop/switch region; other site 424182005251 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182005252 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 424182005253 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 424182005254 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 424182005255 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 424182005256 Predicted permeases [General function prediction only]; Region: COG0679 424182005257 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 424182005258 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 424182005259 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 424182005260 salt bridge; other site 424182005261 non-specific DNA binding site [nucleotide binding]; other site 424182005262 sequence-specific DNA binding site [nucleotide binding]; other site 424182005263 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 424182005264 non-specific DNA binding site [nucleotide binding]; other site 424182005265 salt bridge; other site 424182005266 sequence-specific DNA binding site [nucleotide binding]; other site 424182005267 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 424182005268 active site 424182005269 catalytic residues [active] 424182005270 DNA binding site [nucleotide binding] 424182005271 Int/Topo IB signature motif; other site 424182005272 Domain of unknown function (DUF771); Region: DUF771; cl09962 424182005273 Protein of unknown function DUF262; Region: DUF262; pfam03235 424182005274 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; cl07055 424182005275 Domain of Unknown Function with PDB structure (DUF3850); Region: DUF3850; pfam12961 424182005276 Toprim domain; Region: Toprim_3; pfam13362 424182005277 Terminase-like family; Region: Terminase_6; pfam03237 424182005278 hypothetical protein; Region: PHA00670 424182005279 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 424182005280 hypothetical protein; Region: PHA00661 424182005281 structural protein; Region: PHA01972 424182005282 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 424182005283 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 424182005284 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 424182005285 active site 424182005286 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 424182005287 catalytic residue [active] 424182005288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 424182005289 Peptidase M15; Region: Peptidase_M15_3; cl01194 424182005290 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182005291 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 424182005292 dimer interface [polypeptide binding]; other site 424182005293 active site 424182005294 metal binding site [ion binding]; metal-binding site 424182005295 glutathione binding site [chemical binding]; other site 424182005296 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 424182005297 DNA-binding site [nucleotide binding]; DNA binding site 424182005298 RNA-binding motif; other site 424182005299 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 424182005300 DNA-binding site [nucleotide binding]; DNA binding site 424182005301 RNA-binding motif; other site 424182005302 Uncharacterized conserved protein [Function unknown]; Region: COG1430 424182005303 BON domain; Region: BON; pfam04972 424182005304 Protein of unknown function (DUF982); Region: DUF982; pfam06169 424182005305 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 424182005306 ligand binding site; other site 424182005307 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 424182005308 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 424182005309 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 424182005310 AAA domain; Region: AAA_18; pfam13238 424182005311 HD domain; Region: HD_3; cl17350 424182005312 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u5; cd11542 424182005313 metal binding site [ion binding]; metal-binding site 424182005314 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 424182005315 Uncharacterized conserved protein [Function unknown]; Region: COG2135 424182005316 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 424182005317 Phage-related lysozyme (muraminidase) [General function prediction only]; Region: COG3772 424182005318 catalytic residue [active] 424182005319 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 424182005320 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182005321 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 424182005322 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 424182005323 Putative phage tail protein; Region: Phage-tail_3; pfam13550 424182005324 putative acetyltransferase; Provisional; Region: PRK03624 424182005325 Uncharacterized protein conserved in archaea (DUF2192); Region: DUF2192; pfam09958 424182005326 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 424182005327 NUMOD4 motif; Region: NUMOD4; pfam07463 424182005328 HNH endonuclease; Region: HNH_3; pfam13392 424182005329 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 424182005330 HIRAN domain; Region: HIRAN; cl07418 424182005331 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 424182005332 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 424182005333 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 424182005334 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 424182005335 oligomerization interface [polypeptide binding]; other site 424182005336 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 424182005337 Phage capsid family; Region: Phage_capsid; pfam05065 424182005338 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 424182005339 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 424182005340 tandem repeat interface [polypeptide binding]; other site 424182005341 oligomer interface [polypeptide binding]; other site 424182005342 active site residues [active] 424182005343 Phage-related protein [Function unknown]; Region: COG4695 424182005344 Phage portal protein; Region: Phage_portal; pfam04860 424182005345 Phage Terminase; Region: Terminase_1; pfam03354 424182005346 V-type ATP synthase subunit I; Validated; Region: PRK05771 424182005347 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 424182005348 Abortive infection C-terminus; Region: Abi_C; pfam14355 424182005349 Divergent AAA domain; Region: AAA_4; pfam04326 424182005350 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 424182005351 polymerase nucleotide-binding site; other site 424182005352 DNA-binding residues [nucleotide binding]; DNA binding site 424182005353 nucleotide binding site [chemical binding]; other site 424182005354 primase nucleotide-binding site [nucleotide binding]; other site 424182005355 AAA domain; Region: AAA_25; pfam13481 424182005356 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 424182005357 Walker A motif; other site 424182005358 NTP binding site [chemical binding]; other site 424182005359 hexamer interface [polypeptide binding]; other site 424182005360 Walker B motif; other site 424182005361 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 424182005362 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 424182005363 active site 424182005364 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 424182005365 DNA methylase; Region: N6_N4_Mtase; cl17433 424182005366 DEAD-like helicases superfamily; Region: DEXDc; smart00487 424182005367 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 424182005368 ATP binding site [chemical binding]; other site 424182005369 putative Mg++ binding site [ion binding]; other site 424182005370 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 424182005371 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 424182005372 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 424182005373 ATP binding site [chemical binding]; other site 424182005374 putative Mg++ binding site [ion binding]; other site 424182005375 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 424182005376 nucleotide binding region [chemical binding]; other site 424182005377 ATP-binding site [chemical binding]; other site 424182005378 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 424182005379 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182005380 DNA polymerase III subunit beta; Validated; Region: PRK05643 424182005381 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 424182005382 putative DNA binding surface [nucleotide binding]; other site 424182005383 dimer interface [polypeptide binding]; other site 424182005384 beta-clamp/clamp loader binding surface; other site 424182005385 beta-clamp/translesion DNA polymerase binding surface; other site 424182005386 AAA ATPase domain; Region: AAA_16; pfam13191 424182005387 AAA domain; Region: AAA_24; pfam13479 424182005388 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 424182005389 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; cl00364 424182005390 L11 interface [polypeptide binding]; other site 424182005391 putative EF-Tu interaction site [polypeptide binding]; other site 424182005392 putative EF-G interaction site [polypeptide binding]; other site 424182005393 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 424182005394 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 424182005395 Catalytic site [active] 424182005396 Predicted transcriptional regulator [Transcription]; Region: COG2932 424182005397 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 424182005398 Catalytic site [active] 424182005399 Helix-turn-helix domain; Region: HTH_17; cl17695 424182005400 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 424182005401 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 424182005402 active site 424182005403 Int/Topo IB signature motif; other site 424182005404 catalytic residues [active] 424182005405 DNA binding site [nucleotide binding] 424182005406 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 424182005407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182005408 putative acetyltransferase; Provisional; Region: PRK03624 424182005409 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182005410 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182005411 Coenzyme A binding pocket [chemical binding]; other site 424182005412 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182005413 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182005414 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182005415 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 424182005416 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 424182005417 Walker A/P-loop; other site 424182005418 ATP binding site [chemical binding]; other site 424182005419 Q-loop/lid; other site 424182005420 ABC transporter signature motif; other site 424182005421 Walker B; other site 424182005422 D-loop; other site 424182005423 H-loop/switch region; other site 424182005424 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 424182005425 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 424182005426 FtsX-like permease family; Region: FtsX; pfam02687 424182005427 Transposase; Region: HTH_Tnp_1; cl17663 424182005428 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182005429 HTH-like domain; Region: HTH_21; pfam13276 424182005430 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 424182005431 Integrase core domain; Region: rve; pfam00665 424182005432 Integrase core domain; Region: rve_3; pfam13683 424182005433 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 424182005434 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 424182005435 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 424182005436 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 424182005437 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182005438 catalytic residue [active] 424182005439 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 424182005440 FeS assembly protein SufD; Region: sufD; TIGR01981 424182005441 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 424182005442 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 424182005443 Walker A/P-loop; other site 424182005444 ATP binding site [chemical binding]; other site 424182005445 Q-loop/lid; other site 424182005446 ABC transporter signature motif; other site 424182005447 Walker B; other site 424182005448 D-loop; other site 424182005449 H-loop/switch region; other site 424182005450 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 424182005451 putative ABC transporter; Region: ycf24; CHL00085 424182005452 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 424182005453 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 424182005454 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182005455 catalytic residue [active] 424182005456 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 424182005457 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 424182005458 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 424182005459 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 424182005460 active site 424182005461 HIGH motif; other site 424182005462 dimer interface [polypeptide binding]; other site 424182005463 KMSKS motif; other site 424182005464 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 424182005465 RNA binding surface [nucleotide binding]; other site 424182005466 Protein of unknown function; Region: DUF3971; pfam13116 424182005467 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 424182005468 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 424182005469 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 424182005470 catalytic triad [active] 424182005471 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 424182005472 dinuclear metal binding motif [ion binding]; other site 424182005473 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 424182005474 Peptidase family M23; Region: Peptidase_M23; pfam01551 424182005475 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 424182005476 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 424182005477 ATP binding site [chemical binding]; other site 424182005478 Mg++ binding site [ion binding]; other site 424182005479 motif III; other site 424182005480 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 424182005481 nucleotide binding region [chemical binding]; other site 424182005482 ATP-binding site [chemical binding]; other site 424182005483 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 424182005484 nudix motif; other site 424182005485 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 424182005486 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 424182005487 ligand binding site [chemical binding]; other site 424182005488 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 424182005489 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 424182005490 substrate binding site [chemical binding]; other site 424182005491 hexamer interface [polypeptide binding]; other site 424182005492 metal binding site [ion binding]; metal-binding site 424182005493 adenylosuccinate lyase; Provisional; Region: PRK07492 424182005494 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 424182005495 tetramer interface [polypeptide binding]; other site 424182005496 active site 424182005497 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 424182005498 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182005499 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 424182005500 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 424182005501 ATP binding site [chemical binding]; other site 424182005502 active site 424182005503 substrate binding site [chemical binding]; other site 424182005504 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 424182005505 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 424182005506 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 424182005507 putative active site [active] 424182005508 catalytic triad [active] 424182005509 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 424182005510 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 424182005511 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182005512 DNA-binding site [nucleotide binding]; DNA binding site 424182005513 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 424182005514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182005515 homodimer interface [polypeptide binding]; other site 424182005516 catalytic residue [active] 424182005517 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 424182005518 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 424182005519 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 424182005520 dimerization interface [polypeptide binding]; other site 424182005521 ATP binding site [chemical binding]; other site 424182005522 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 424182005523 dimerization interface [polypeptide binding]; other site 424182005524 ATP binding site [chemical binding]; other site 424182005525 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 424182005526 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 424182005527 putative GSH binding site [chemical binding]; other site 424182005528 catalytic residues [active] 424182005529 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 424182005530 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 424182005531 putative substrate translocation pore; other site 424182005532 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182005533 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 424182005534 active site 424182005535 putative lithium-binding site [ion binding]; other site 424182005536 substrate binding site [chemical binding]; other site 424182005537 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182005538 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 424182005539 active site 424182005540 putative lithium-binding site [ion binding]; other site 424182005541 substrate binding site [chemical binding]; other site 424182005542 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 424182005543 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 424182005544 Ligand Binding Site [chemical binding]; other site 424182005545 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 424182005546 glutaminase; Provisional; Region: PRK00971 424182005547 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 424182005548 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 424182005549 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 424182005550 RNA binding surface [nucleotide binding]; other site 424182005551 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 424182005552 Domain of unknown function DUF87; Region: DUF87; pfam01935 424182005553 HerA helicase [Replication, recombination, and repair]; Region: COG0433 424182005554 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 424182005555 EamA-like transporter family; Region: EamA; pfam00892 424182005556 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182005557 glutamate racemase; Provisional; Region: PRK00865 424182005558 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 424182005559 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 424182005560 isocitrate dehydrogenase; Validated; Region: PRK08299 424182005561 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182005562 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 424182005563 putative C-terminal domain interface [polypeptide binding]; other site 424182005564 putative GSH binding site (G-site) [chemical binding]; other site 424182005565 putative dimer interface [polypeptide binding]; other site 424182005566 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 424182005567 dimer interface [polypeptide binding]; other site 424182005568 N-terminal domain interface [polypeptide binding]; other site 424182005569 putative substrate binding pocket (H-site) [chemical binding]; other site 424182005570 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 424182005571 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 424182005572 motif 1; other site 424182005573 active site 424182005574 motif 2; other site 424182005575 motif 3; other site 424182005576 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 424182005577 DHHA1 domain; Region: DHHA1; pfam02272 424182005578 recombinase A; Provisional; Region: recA; PRK09354 424182005579 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 424182005580 hexamer interface [polypeptide binding]; other site 424182005581 Walker A motif; other site 424182005582 ATP binding site [chemical binding]; other site 424182005583 Walker B motif; other site 424182005584 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182005585 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 424182005586 substrate binding site [chemical binding]; other site 424182005587 ATP binding site [chemical binding]; other site 424182005588 Uncharacterized enzyme involved in pigment biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IndA; COG2313 424182005589 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 424182005590 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 424182005591 ligand binding site [chemical binding]; other site 424182005592 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 424182005593 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182005594 substrate binding pocket [chemical binding]; other site 424182005595 membrane-bound complex binding site; other site 424182005596 hinge residues; other site 424182005597 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182005598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182005599 dimer interface [polypeptide binding]; other site 424182005600 conserved gate region; other site 424182005601 putative PBP binding loops; other site 424182005602 ABC-ATPase subunit interface; other site 424182005603 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182005604 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182005605 dimer interface [polypeptide binding]; other site 424182005606 conserved gate region; other site 424182005607 putative PBP binding loops; other site 424182005608 ABC-ATPase subunit interface; other site 424182005609 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 424182005610 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 424182005611 Tetratricopeptide repeat; Region: TPR_1; pfam00515 424182005612 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 424182005613 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 424182005614 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 424182005615 substrate binding pocket [chemical binding]; other site 424182005616 membrane-bound complex binding site; other site 424182005617 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182005618 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 424182005619 putative DNA binding site [nucleotide binding]; other site 424182005620 putative Zn2+ binding site [ion binding]; other site 424182005621 AsnC family; Region: AsnC_trans_reg; pfam01037 424182005622 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 424182005623 putative uracil binding site [chemical binding]; other site 424182005624 putative active site [active] 424182005625 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 424182005626 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 424182005627 Catalytic site; other site 424182005628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182005629 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 424182005630 dimer interface [polypeptide binding]; other site 424182005631 phosphorylation site [posttranslational modification] 424182005632 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 424182005633 ATP binding site [chemical binding]; other site 424182005634 Mg2+ binding site [ion binding]; other site 424182005635 G-X-G motif; other site 424182005636 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 424182005637 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 424182005638 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 424182005639 putative dimer interface [polypeptide binding]; other site 424182005640 active site pocket [active] 424182005641 putative cataytic base [active] 424182005642 cobalamin synthase; Reviewed; Region: cobS; PRK00235 424182005643 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 424182005644 Predicted aspartyl protease [General function prediction only]; Region: COG3577 424182005645 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 424182005646 catalytic motif [active] 424182005647 Catalytic residue [active] 424182005648 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 424182005649 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 424182005650 ABC-2 type transporter; Region: ABC2_membrane; cl17235 424182005651 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 424182005652 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 424182005653 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 424182005654 Walker A/P-loop; other site 424182005655 ATP binding site [chemical binding]; other site 424182005656 Q-loop/lid; other site 424182005657 ABC transporter signature motif; other site 424182005658 Walker B; other site 424182005659 D-loop; other site 424182005660 H-loop/switch region; other site 424182005661 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 424182005662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 424182005663 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 424182005664 Cache domain; Region: Cache_2; pfam08269 424182005665 HAMP domain; Region: HAMP; pfam00672 424182005666 dimerization interface [polypeptide binding]; other site 424182005667 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 424182005668 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182005669 dimer interface [polypeptide binding]; other site 424182005670 putative CheW interface [polypeptide binding]; other site 424182005671 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 424182005672 recombination factor protein RarA; Reviewed; Region: PRK13342 424182005673 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 424182005674 Walker A motif; other site 424182005675 ATP binding site [chemical binding]; other site 424182005676 Walker B motif; other site 424182005677 arginine finger; other site 424182005678 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 424182005679 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 424182005680 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 424182005681 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 424182005682 protein binding site [polypeptide binding]; other site 424182005683 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 424182005684 protein binding site [polypeptide binding]; other site 424182005685 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 424182005686 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 424182005687 Beta-lactamase; Region: Beta-lactamase; pfam00144 424182005688 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 424182005689 TMAO/DMSO reductase; Reviewed; Region: PRK05363 424182005690 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 424182005691 Moco binding site; other site 424182005692 metal coordination site [ion binding]; other site 424182005693 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 424182005694 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 424182005695 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 424182005696 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 424182005697 alphaNTD homodimer interface [polypeptide binding]; other site 424182005698 alphaNTD - beta interaction site [polypeptide binding]; other site 424182005699 alphaNTD - beta' interaction site [polypeptide binding]; other site 424182005700 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 424182005701 30S ribosomal protein S11; Validated; Region: PRK05309 424182005702 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 424182005703 30S ribosomal protein S13; Region: bact_S13; TIGR03631 424182005704 adenylate kinase; Reviewed; Region: adk; PRK00279 424182005705 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 424182005706 AMP-binding site [chemical binding]; other site 424182005707 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 424182005708 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 424182005709 SecY translocase; Region: SecY; pfam00344 424182005710 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 424182005711 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 424182005712 23S rRNA binding site [nucleotide binding]; other site 424182005713 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 424182005714 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 424182005715 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 424182005716 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 424182005717 23S rRNA interface [nucleotide binding]; other site 424182005718 L21e interface [polypeptide binding]; other site 424182005719 5S rRNA interface [nucleotide binding]; other site 424182005720 L27 interface [polypeptide binding]; other site 424182005721 L5 interface [polypeptide binding]; other site 424182005722 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 424182005723 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 424182005724 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 424182005725 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 424182005726 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 424182005727 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 424182005728 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 424182005729 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 424182005730 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 424182005731 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 424182005732 RNA binding site [nucleotide binding]; other site 424182005733 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 424182005734 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 424182005735 putative translocon interaction site; other site 424182005736 signal recognition particle (SRP54) interaction site; other site 424182005737 L23 interface [polypeptide binding]; other site 424182005738 trigger factor interaction site; other site 424182005739 23S rRNA interface [nucleotide binding]; other site 424182005740 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 424182005741 23S rRNA interface [nucleotide binding]; other site 424182005742 5S rRNA interface [nucleotide binding]; other site 424182005743 putative antibiotic binding site [chemical binding]; other site 424182005744 L25 interface [polypeptide binding]; other site 424182005745 L27 interface [polypeptide binding]; other site 424182005746 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 424182005747 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 424182005748 G-X-X-G motif; other site 424182005749 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 424182005750 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 424182005751 putative translocon binding site; other site 424182005752 protein-rRNA interface [nucleotide binding]; other site 424182005753 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 424182005754 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 424182005755 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 424182005756 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 424182005757 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 424182005758 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 424182005759 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 424182005760 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 424182005761 elongation factor Tu; Reviewed; Region: PRK00049 424182005762 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 424182005763 G1 box; other site 424182005764 GEF interaction site [polypeptide binding]; other site 424182005765 GTP/Mg2+ binding site [chemical binding]; other site 424182005766 Switch I region; other site 424182005767 G2 box; other site 424182005768 G3 box; other site 424182005769 Switch II region; other site 424182005770 G4 box; other site 424182005771 G5 box; other site 424182005772 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 424182005773 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 424182005774 Antibiotic Binding Site [chemical binding]; other site 424182005775 elongation factor G; Reviewed; Region: PRK00007 424182005776 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 424182005777 G1 box; other site 424182005778 putative GEF interaction site [polypeptide binding]; other site 424182005779 GTP/Mg2+ binding site [chemical binding]; other site 424182005780 Switch I region; other site 424182005781 G2 box; other site 424182005782 G3 box; other site 424182005783 Switch II region; other site 424182005784 G4 box; other site 424182005785 G5 box; other site 424182005786 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 424182005787 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 424182005788 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 424182005789 30S ribosomal protein S7; Validated; Region: PRK05302 424182005790 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 424182005791 S17 interaction site [polypeptide binding]; other site 424182005792 S8 interaction site; other site 424182005793 16S rRNA interaction site [nucleotide binding]; other site 424182005794 streptomycin interaction site [chemical binding]; other site 424182005795 23S rRNA interaction site [nucleotide binding]; other site 424182005796 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 424182005797 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 424182005798 dimer interface [polypeptide binding]; other site 424182005799 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182005800 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182005801 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 424182005802 DNA binding residues [nucleotide binding] 424182005803 dimerization interface [polypeptide binding]; other site 424182005804 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 424182005805 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 424182005806 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 424182005807 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 424182005808 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 424182005809 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 424182005810 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 424182005811 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 424182005812 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 424182005813 DNA binding site [nucleotide binding] 424182005814 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 424182005815 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 424182005816 core dimer interface [polypeptide binding]; other site 424182005817 peripheral dimer interface [polypeptide binding]; other site 424182005818 L10 interface [polypeptide binding]; other site 424182005819 L11 interface [polypeptide binding]; other site 424182005820 putative EF-Tu interaction site [polypeptide binding]; other site 424182005821 putative EF-G interaction site [polypeptide binding]; other site 424182005822 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 424182005823 23S rRNA interface [nucleotide binding]; other site 424182005824 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 424182005825 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 424182005826 mRNA/rRNA interface [nucleotide binding]; other site 424182005827 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 424182005828 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 424182005829 23S rRNA interface [nucleotide binding]; other site 424182005830 L7/L12 interface [polypeptide binding]; other site 424182005831 putative thiostrepton binding site; other site 424182005832 L25 interface [polypeptide binding]; other site 424182005833 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 424182005834 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 424182005835 putative homodimer interface [polypeptide binding]; other site 424182005836 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 424182005837 heterodimer interface [polypeptide binding]; other site 424182005838 homodimer interface [polypeptide binding]; other site 424182005839 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 424182005840 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182005841 extended (e) SDRs; Region: SDR_e; cd08946 424182005842 NAD(P) binding site [chemical binding]; other site 424182005843 active site 424182005844 substrate binding site [chemical binding]; other site 424182005845 elongation factor Tu; Reviewed; Region: PRK00049 424182005846 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 424182005847 G1 box; other site 424182005848 GEF interaction site [polypeptide binding]; other site 424182005849 GTP/Mg2+ binding site [chemical binding]; other site 424182005850 Switch I region; other site 424182005851 G2 box; other site 424182005852 G3 box; other site 424182005853 Switch II region; other site 424182005854 G4 box; other site 424182005855 G5 box; other site 424182005856 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 424182005857 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 424182005858 Antibiotic Binding Site [chemical binding]; other site 424182005859 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 424182005860 Predicted periplasmic protein [General function prediction only]; Region: COG3895 424182005861 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 424182005862 BA14K-like protein; Region: BA14K; pfam07886 424182005863 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 424182005864 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 424182005865 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 424182005866 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 424182005867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4922 424182005868 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 424182005869 NADH(P)-binding; Region: NAD_binding_10; pfam13460 424182005870 NAD binding site [chemical binding]; other site 424182005871 substrate binding site [chemical binding]; other site 424182005872 putative active site [active] 424182005873 Predicted transcriptional regulators [Transcription]; Region: COG1733 424182005874 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 424182005875 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182005876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3169 424182005877 excinuclease ABC subunit B; Provisional; Region: PRK05298 424182005878 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 424182005879 ATP binding site [chemical binding]; other site 424182005880 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 424182005881 nucleotide binding region [chemical binding]; other site 424182005882 ATP-binding site [chemical binding]; other site 424182005883 Ultra-violet resistance protein B; Region: UvrB; pfam12344 424182005884 UvrB/uvrC motif; Region: UVR; pfam02151 424182005885 Predicted esterase [General function prediction only]; Region: COG0627 424182005886 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 424182005887 Uncharacterized conserved protein [Function unknown]; Region: COG5649 424182005888 PRC-barrel domain; Region: PRC; pfam05239 424182005889 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 424182005890 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 424182005891 HSP70 interaction site [polypeptide binding]; other site 424182005892 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 424182005893 SnoaL-like domain; Region: SnoaL_3; pfam13474 424182005894 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182005895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182005896 metal binding site [ion binding]; metal-binding site 424182005897 active site 424182005898 I-site; other site 424182005899 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 424182005900 putative catalytic site [active] 424182005901 putative metal binding site [ion binding]; other site 424182005902 putative phosphate binding site [ion binding]; other site 424182005903 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182005904 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 424182005905 Walker A/P-loop; other site 424182005906 ATP binding site [chemical binding]; other site 424182005907 Q-loop/lid; other site 424182005908 ABC transporter signature motif; other site 424182005909 Walker B; other site 424182005910 D-loop; other site 424182005911 H-loop/switch region; other site 424182005912 TOBE domain; Region: TOBE_2; pfam08402 424182005913 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 424182005914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182005915 dimer interface [polypeptide binding]; other site 424182005916 conserved gate region; other site 424182005917 putative PBP binding loops; other site 424182005918 ABC-ATPase subunit interface; other site 424182005919 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182005920 dimer interface [polypeptide binding]; other site 424182005921 conserved gate region; other site 424182005922 putative PBP binding loops; other site 424182005923 ABC-ATPase subunit interface; other site 424182005924 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182005925 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182005926 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 424182005927 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 424182005928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182005929 homodimer interface [polypeptide binding]; other site 424182005930 catalytic residue [active] 424182005931 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 424182005932 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 424182005933 putative catalytic site [active] 424182005934 putative metal binding site [ion binding]; other site 424182005935 putative phosphate binding site [ion binding]; other site 424182005936 ketol-acid reductoisomerase; Provisional; Region: PRK05479 424182005937 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 424182005938 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 424182005939 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182005940 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182005941 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 424182005942 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182005943 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182005944 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 424182005945 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 424182005946 putative NAD(P) binding site [chemical binding]; other site 424182005947 putative substrate binding site [chemical binding]; other site 424182005948 catalytic Zn binding site [ion binding]; other site 424182005949 structural Zn binding site [ion binding]; other site 424182005950 dimer interface [polypeptide binding]; other site 424182005951 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 424182005952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182005953 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182005954 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 424182005955 active site 424182005956 hydrophilic channel; other site 424182005957 dimerization interface [polypeptide binding]; other site 424182005958 catalytic residues [active] 424182005959 active site lid [active] 424182005960 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 424182005961 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 424182005962 DNA binding residues [nucleotide binding] 424182005963 dimer interface [polypeptide binding]; other site 424182005964 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 424182005965 DNA binding residues [nucleotide binding] 424182005966 dimerization interface [polypeptide binding]; other site 424182005967 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 424182005968 AAA domain; Region: AAA_30; pfam13604 424182005969 Family description; Region: UvrD_C_2; pfam13538 424182005970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 424182005971 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 424182005972 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 424182005973 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 424182005974 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182005975 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 424182005976 DNA binding residues [nucleotide binding] 424182005977 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 424182005978 Protein with unknown function (DUF469); Region: DUF469; cl01237 424182005979 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182005980 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 424182005981 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182005982 active site 424182005983 catalytic tetrad [active] 424182005984 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 424182005985 putative hydrophobic ligand binding site [chemical binding]; other site 424182005986 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 424182005987 dimerization interface [polypeptide binding]; other site 424182005988 putative DNA binding site [nucleotide binding]; other site 424182005989 putative Zn2+ binding site [ion binding]; other site 424182005990 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 424182005991 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 424182005992 putative valine binding site [chemical binding]; other site 424182005993 dimer interface [polypeptide binding]; other site 424182005994 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 424182005995 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 424182005996 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 424182005997 PYR/PP interface [polypeptide binding]; other site 424182005998 dimer interface [polypeptide binding]; other site 424182005999 TPP binding site [chemical binding]; other site 424182006000 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 424182006001 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 424182006002 TPP-binding site [chemical binding]; other site 424182006003 dimer interface [polypeptide binding]; other site 424182006004 HerA helicase [Replication, recombination, and repair]; Region: COG0433 424182006005 Domain of unknown function DUF87; Region: DUF87; pfam01935 424182006006 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 424182006007 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 424182006008 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 424182006009 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 424182006010 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 424182006011 motif II; other site 424182006012 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 424182006013 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182006014 short chain dehydrogenase; Provisional; Region: PRK07478 424182006015 classical (c) SDRs; Region: SDR_c; cd05233 424182006016 NAD(P) binding site [chemical binding]; other site 424182006017 active site 424182006018 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 424182006019 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 424182006020 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 424182006021 protein binding site [polypeptide binding]; other site 424182006022 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 424182006023 protein binding site [polypeptide binding]; other site 424182006024 EamA-like transporter family; Region: EamA; pfam00892 424182006025 EamA-like transporter family; Region: EamA; cl17759 424182006026 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 424182006027 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 424182006028 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 424182006029 HflK protein; Region: hflK; TIGR01933 424182006030 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 424182006031 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 424182006032 folate binding site [chemical binding]; other site 424182006033 NADP+ binding site [chemical binding]; other site 424182006034 thymidylate synthase; Reviewed; Region: thyA; PRK01827 424182006035 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 424182006036 dimerization interface [polypeptide binding]; other site 424182006037 active site 424182006038 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 424182006039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 424182006040 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 424182006041 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 424182006042 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 424182006043 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 424182006044 FAD binding domain; Region: FAD_binding_4; pfam01565 424182006045 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 424182006046 Protein export membrane protein; Region: SecD_SecF; cl14618 424182006047 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182006048 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182006049 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182006050 Uncharacterized conserved protein [Function unknown]; Region: COG2128 424182006051 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 424182006052 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 424182006053 Part of AAA domain; Region: AAA_19; pfam13245 424182006054 Family description; Region: UvrD_C_2; pfam13538 424182006055 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 424182006056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 424182006057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 424182006058 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 424182006059 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 424182006060 Isochorismatase family; Region: Isochorismatase; pfam00857 424182006061 catalytic triad [active] 424182006062 metal binding site [ion binding]; metal-binding site 424182006063 conserved cis-peptide bond; other site 424182006064 Uncharacterized conserved protein [Function unknown]; Region: COG5460 424182006065 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 424182006066 Predicted membrane protein [Function unknown]; Region: COG4541 424182006067 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182006068 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 424182006069 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182006070 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 424182006071 active site 424182006072 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 424182006073 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 424182006074 S-adenosylmethionine binding site [chemical binding]; other site 424182006075 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 424182006076 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 424182006077 Cu(I) binding site [ion binding]; other site 424182006078 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 424182006079 putative CheA interaction surface; other site 424182006080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 424182006081 CreA protein; Region: CreA; pfam05981 424182006082 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 424182006083 active site 424182006084 catalytic site [active] 424182006085 substrate binding site [chemical binding]; other site 424182006086 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182006087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182006088 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 424182006089 dimerization interface [polypeptide binding]; other site 424182006090 substrate binding pocket [chemical binding]; other site 424182006091 EamA-like transporter family; Region: EamA; pfam00892 424182006092 EamA-like transporter family; Region: EamA; pfam00892 424182006093 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182006094 Coenzyme A binding pocket [chemical binding]; other site 424182006095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182006096 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 424182006097 Phosphotransferase enzyme family; Region: APH; pfam01636 424182006098 substrate binding site [chemical binding]; other site 424182006099 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 424182006100 Phosphotransferase enzyme family; Region: APH; pfam01636 424182006101 active site 424182006102 ATP binding site [chemical binding]; other site 424182006103 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 424182006104 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 424182006105 nucleotide binding pocket [chemical binding]; other site 424182006106 K-X-D-G motif; other site 424182006107 catalytic site [active] 424182006108 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 424182006109 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 424182006110 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 424182006111 Dimer interface [polypeptide binding]; other site 424182006112 BRCT sequence motif; other site 424182006113 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 424182006114 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 424182006115 Walker A/P-loop; other site 424182006116 ATP binding site [chemical binding]; other site 424182006117 Q-loop/lid; other site 424182006118 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 424182006119 ABC transporter signature motif; other site 424182006120 Walker B; other site 424182006121 D-loop; other site 424182006122 H-loop/switch region; other site 424182006123 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 424182006124 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 424182006125 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 424182006126 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 424182006127 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 424182006128 nucleotide binding site [chemical binding]; other site 424182006129 SulA interaction site; other site 424182006130 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 424182006131 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 424182006132 Cell division protein FtsA; Region: FtsA; smart00842 424182006133 Cell division protein FtsA; Region: FtsA; pfam14450 424182006134 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 424182006135 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 424182006136 Cell division protein FtsQ; Region: FtsQ; pfam03799 424182006137 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 424182006138 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 424182006139 ATP-grasp domain; Region: ATP-grasp_4; cl17255 424182006140 metabolite-proton symporter; Region: 2A0106; TIGR00883 424182006141 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 424182006142 putative substrate translocation pore; other site 424182006143 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 424182006144 FAD binding domain; Region: FAD_binding_4; pfam01565 424182006145 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 424182006146 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 424182006147 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 424182006148 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 424182006149 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 424182006150 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 424182006151 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 424182006152 active site 424182006153 homodimer interface [polypeptide binding]; other site 424182006154 cell division protein FtsW; Region: ftsW; TIGR02614 424182006155 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 424182006156 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 424182006157 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 424182006158 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 424182006159 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 424182006160 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 424182006161 Mg++ binding site [ion binding]; other site 424182006162 putative catalytic motif [active] 424182006163 putative substrate binding site [chemical binding]; other site 424182006164 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 424182006165 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 424182006166 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 424182006167 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 424182006168 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 424182006169 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 424182006170 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 424182006171 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 424182006172 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 424182006173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 424182006174 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 424182006175 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 424182006176 MraW methylase family; Region: Methyltransf_5; cl17771 424182006177 cell division protein MraZ; Reviewed; Region: PRK00326 424182006178 MraZ protein; Region: MraZ; pfam02381 424182006179 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182006180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182006181 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182006182 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 424182006183 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 424182006184 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182006185 catalytic residue [active] 424182006186 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 424182006187 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 424182006188 amidase catalytic site [active] 424182006189 Zn binding residues [ion binding]; other site 424182006190 substrate binding site [chemical binding]; other site 424182006191 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182006192 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 424182006193 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 424182006194 putative metal binding site [ion binding]; other site 424182006195 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 424182006196 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 424182006197 6-phosphofructokinase [Carbohydrate transport and metabolism]; Region: PfkA; COG0205 424182006198 active site 424182006199 ADP/pyrophosphate binding site [chemical binding]; other site 424182006200 dimerization interface [polypeptide binding]; other site 424182006201 allosteric effector site; other site 424182006202 fructose-1,6-bisphosphate binding site; other site 424182006203 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182006204 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 424182006205 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 424182006206 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182006207 catalytic residue [active] 424182006208 S-adenosylmethionine:diacylglycerol 3-amino-3-carboxypropyl transferase [Lipid metabolism]; Region: BtaA; COG5379 424182006209 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 424182006210 S-adenosylmethionine binding site [chemical binding]; other site 424182006211 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 424182006212 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 424182006213 active site 424182006214 lytic murein transglycosylase; Region: MltB_2; TIGR02283 424182006215 murein hydrolase B; Provisional; Region: PRK10760; cl17906 424182006216 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182006217 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 424182006218 FAD binding site [chemical binding]; other site 424182006219 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 424182006220 dimerization interface [polypeptide binding]; other site 424182006221 putative DNA binding site [nucleotide binding]; other site 424182006222 putative Zn2+ binding site [ion binding]; other site 424182006223 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 424182006224 S-adenosylmethionine binding site [chemical binding]; other site 424182006225 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 424182006226 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182006227 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182006228 ABC transporter; Region: ABC_tran_2; pfam12848 424182006229 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182006230 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 424182006231 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182006232 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 424182006233 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 424182006234 CoA-transferase family III; Region: CoA_transf_3; pfam02515 424182006235 thiamine pyrophosphate protein; Validated; Region: PRK08199 424182006236 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 424182006237 PYR/PP interface [polypeptide binding]; other site 424182006238 dimer interface [polypeptide binding]; other site 424182006239 TPP binding site [chemical binding]; other site 424182006240 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 424182006241 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 424182006242 TPP-binding site [chemical binding]; other site 424182006243 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 424182006244 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 424182006245 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 424182006246 homotrimer interaction site [polypeptide binding]; other site 424182006247 putative active site [active] 424182006248 Putative phosphatase (DUF442); Region: DUF442; cl17385 424182006249 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 424182006250 active site 424182006251 catalytic residues [active] 424182006252 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182006253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 424182006254 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182006255 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 424182006256 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 424182006257 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182006258 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182006259 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 424182006260 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 424182006261 P-loop; other site 424182006262 Magnesium ion binding site [ion binding]; other site 424182006263 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 424182006264 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 424182006265 putative active site [active] 424182006266 metal binding site [ion binding]; metal-binding site 424182006267 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 424182006268 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 424182006269 NAD(P) binding site [chemical binding]; other site 424182006270 catalytic residues [active] 424182006271 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 424182006272 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 424182006273 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 424182006274 ethanolamine permease; Region: 2A0305; TIGR00908 424182006275 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 424182006276 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 424182006277 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 424182006278 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 424182006279 putative active site [active] 424182006280 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182006281 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182006282 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182006283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182006284 putative PBP binding loops; other site 424182006285 dimer interface [polypeptide binding]; other site 424182006286 ABC-ATPase subunit interface; other site 424182006287 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182006288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182006289 dimer interface [polypeptide binding]; other site 424182006290 conserved gate region; other site 424182006291 putative PBP binding loops; other site 424182006292 ABC-ATPase subunit interface; other site 424182006293 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182006294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182006295 Walker A/P-loop; other site 424182006296 ATP binding site [chemical binding]; other site 424182006297 Q-loop/lid; other site 424182006298 ABC transporter signature motif; other site 424182006299 Walker B; other site 424182006300 D-loop; other site 424182006301 H-loop/switch region; other site 424182006302 TOBE domain; Region: TOBE_2; pfam08402 424182006303 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 424182006304 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 424182006305 putative NAD(P) binding site [chemical binding]; other site 424182006306 catalytic Zn binding site [ion binding]; other site 424182006307 structural Zn binding site [ion binding]; other site 424182006308 Predicted ATPase [General function prediction only]; Region: COG3910 424182006309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182006310 Walker A/P-loop; other site 424182006311 ATP binding site [chemical binding]; other site 424182006312 ABC transporter signature motif; other site 424182006313 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 424182006314 Walker B; other site 424182006315 Walker B; other site 424182006316 D-loop; other site 424182006317 D-loop; other site 424182006318 H-loop/switch region; other site 424182006319 H-loop/switch region; other site 424182006320 metabolite-proton symporter; Region: 2A0106; TIGR00883 424182006321 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 424182006322 putative substrate translocation pore; other site 424182006323 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 424182006324 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 424182006325 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 424182006326 substrate binding pocket [chemical binding]; other site 424182006327 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 424182006328 B12 binding site [chemical binding]; other site 424182006329 cobalt ligand [ion binding]; other site 424182006330 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 424182006331 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 424182006332 dimerization interface [polypeptide binding]; other site 424182006333 putative active cleft [active] 424182006334 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 424182006335 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 424182006336 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 424182006337 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 424182006338 Uncharacterized conserved protein [Function unknown]; Region: COG2968 424182006339 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 424182006340 Uncharacterized conserved protein [Function unknown]; Region: COG0432 424182006341 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 424182006342 GAF domain; Region: GAF; pfam01590 424182006343 Phytochrome region; Region: PHY; pfam00360 424182006344 HWE histidine kinase; Region: HWE_HK; pfam07536 424182006345 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 424182006346 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 424182006347 active site 424182006348 phosphorylation site [posttranslational modification] 424182006349 intermolecular recognition site; other site 424182006350 dimerization interface [polypeptide binding]; other site 424182006351 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 424182006352 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 424182006353 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 424182006354 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 424182006355 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 424182006356 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182006357 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 424182006358 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 424182006359 DNA binding residues [nucleotide binding] 424182006360 DNA primase; Validated; Region: dnaG; PRK05667 424182006361 CHC2 zinc finger; Region: zf-CHC2; pfam01807 424182006362 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 424182006363 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 424182006364 active site 424182006365 metal binding site [ion binding]; metal-binding site 424182006366 interdomain interaction site; other site 424182006367 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 424182006368 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182006369 Coenzyme A binding pocket [chemical binding]; other site 424182006370 Uncharacterized conserved protein [Function unknown]; Region: COG1610 424182006371 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 424182006372 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 424182006373 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 424182006374 catalytic site [active] 424182006375 subunit interface [polypeptide binding]; other site 424182006376 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 424182006377 multidrug efflux protein; Reviewed; Region: PRK01766 424182006378 cation binding site [ion binding]; other site 424182006379 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 424182006380 Cache domain; Region: Cache_1; pfam02743 424182006381 HAMP domain; Region: HAMP; pfam00672 424182006382 dimerization interface [polypeptide binding]; other site 424182006383 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 424182006384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182006385 dimer interface [polypeptide binding]; other site 424182006386 putative CheW interface [polypeptide binding]; other site 424182006387 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 424182006388 Predicted metalloprotease [General function prediction only]; Region: COG2321 424182006389 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 424182006390 Predicted membrane protein [Function unknown]; Region: COG5395 424182006391 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 424182006392 LytTr DNA-binding domain; Region: LytTR; smart00850 424182006393 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 424182006394 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 424182006395 ATP-grasp domain; Region: ATP-grasp_4; cl17255 424182006396 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 424182006397 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 424182006398 ATP-grasp domain; Region: ATP-grasp_4; cl17255 424182006399 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 424182006400 IMP binding site; other site 424182006401 dimer interface [polypeptide binding]; other site 424182006402 partial ornithine binding site; other site 424182006403 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182006404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182006405 metal binding site [ion binding]; metal-binding site 424182006406 active site 424182006407 I-site; other site 424182006408 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 424182006409 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 424182006410 Fe-S cluster binding site [ion binding]; other site 424182006411 active site 424182006412 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]; Region: COG4277 424182006413 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 424182006414 FeS/SAM binding site; other site 424182006415 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 424182006416 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 424182006417 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 424182006418 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 424182006419 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182006420 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182006421 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 424182006422 putative DNA binding site [nucleotide binding]; other site 424182006423 putative Zn2+ binding site [ion binding]; other site 424182006424 AsnC family; Region: AsnC_trans_reg; pfam01037 424182006425 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 424182006426 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182006427 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182006428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182006429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182006430 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 424182006431 putative effector binding pocket; other site 424182006432 dimerization interface [polypeptide binding]; other site 424182006433 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 424182006434 dimerization interface [polypeptide binding]; other site 424182006435 putative DNA binding site [nucleotide binding]; other site 424182006436 putative Zn2+ binding site [ion binding]; other site 424182006437 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 424182006438 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 424182006439 FMN binding site [chemical binding]; other site 424182006440 active site 424182006441 substrate binding site [chemical binding]; other site 424182006442 catalytic residue [active] 424182006443 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182006444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182006445 NAD(P) binding site [chemical binding]; other site 424182006446 active site 424182006447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182006448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182006449 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 424182006450 dimerization interface [polypeptide binding]; other site 424182006451 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 424182006452 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 424182006453 aspartate aminotransferase; Provisional; Region: PRK05764 424182006454 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 424182006455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182006456 homodimer interface [polypeptide binding]; other site 424182006457 catalytic residue [active] 424182006458 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 424182006459 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182006460 EamA-like transporter family; Region: EamA; pfam00892 424182006461 EamA-like transporter family; Region: EamA; pfam00892 424182006462 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 424182006463 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 424182006464 Bacterial SH3 domain; Region: SH3_3; pfam08239 424182006465 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 424182006466 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182006467 MarR family; Region: MarR_2; pfam12802 424182006468 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182006469 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 424182006470 active site 424182006471 phosphorylation site [posttranslational modification] 424182006472 intermolecular recognition site; other site 424182006473 dimerization interface [polypeptide binding]; other site 424182006474 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 424182006475 DNA binding site [nucleotide binding] 424182006476 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182006477 HAMP domain; Region: HAMP; pfam00672 424182006478 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 424182006479 dimer interface [polypeptide binding]; other site 424182006480 phosphorylation site [posttranslational modification] 424182006481 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 424182006482 ATP binding site [chemical binding]; other site 424182006483 Mg2+ binding site [ion binding]; other site 424182006484 G-X-G motif; other site 424182006485 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 424182006486 dimer interface [polypeptide binding]; other site 424182006487 putative tRNA-binding site [nucleotide binding]; other site 424182006488 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 424182006489 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 424182006490 Uncharacterized conserved protein [Function unknown]; Region: COG5465 424182006491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 424182006492 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 424182006493 Uncharacterized conserved protein [Function unknown]; Region: COG1565 424182006494 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 424182006495 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 424182006496 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 424182006497 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182006498 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 424182006499 active site 424182006500 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 424182006501 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 424182006502 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 424182006503 active site 424182006504 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 424182006505 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 424182006506 active site 424182006507 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 424182006508 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 424182006509 Predicted membrane protein [Function unknown]; Region: COG3952 424182006510 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 424182006511 Ligand binding site; other site 424182006512 Putative Catalytic site; other site 424182006513 DXD motif; other site 424182006514 CHASE4 domain; Region: CHASE4; cl01308 424182006515 HAMP domain; Region: HAMP; pfam00672 424182006516 dimerization interface [polypeptide binding]; other site 424182006517 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182006518 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182006519 dimer interface [polypeptide binding]; other site 424182006520 putative CheW interface [polypeptide binding]; other site 424182006521 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 424182006522 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182006523 NAD(P) binding site [chemical binding]; other site 424182006524 catalytic residues [active] 424182006525 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 424182006526 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182006527 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 424182006528 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 424182006529 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 424182006530 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 424182006531 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182006532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182006533 metal binding site [ion binding]; metal-binding site 424182006534 active site 424182006535 I-site; other site 424182006536 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 424182006537 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 424182006538 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 424182006539 5S rRNA interface [nucleotide binding]; other site 424182006540 CTC domain interface [polypeptide binding]; other site 424182006541 L16 interface [polypeptide binding]; other site 424182006542 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 424182006543 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 424182006544 dimerization interface [polypeptide binding]; other site 424182006545 PAS domain S-box; Region: sensory_box; TIGR00229 424182006546 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 424182006547 putative active site [active] 424182006548 heme pocket [chemical binding]; other site 424182006549 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182006550 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182006551 metal binding site [ion binding]; metal-binding site 424182006552 active site 424182006553 I-site; other site 424182006554 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 424182006555 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182006556 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 424182006557 substrate binding pocket [chemical binding]; other site 424182006558 membrane-bound complex binding site; other site 424182006559 hinge residues; other site 424182006560 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 424182006561 putative active site [active] 424182006562 catalytic residue [active] 424182006563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182006564 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 424182006565 GTP-binding protein YchF; Reviewed; Region: PRK09601 424182006566 YchF GTPase; Region: YchF; cd01900 424182006567 G1 box; other site 424182006568 GTP/Mg2+ binding site [chemical binding]; other site 424182006569 Switch I region; other site 424182006570 G2 box; other site 424182006571 Switch II region; other site 424182006572 G3 box; other site 424182006573 G4 box; other site 424182006574 G5 box; other site 424182006575 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 424182006576 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 424182006577 putative active site [active] 424182006578 putative catalytic site [active] 424182006579 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 424182006580 putative active site [active] 424182006581 putative catalytic site [active] 424182006582 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 424182006583 active site 424182006584 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 424182006585 cytochrome b; Provisional; Region: CYTB; MTH00191 424182006586 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 424182006587 Qi binding site; other site 424182006588 intrachain domain interface; other site 424182006589 interchain domain interface [polypeptide binding]; other site 424182006590 heme bH binding site [chemical binding]; other site 424182006591 heme bL binding site [chemical binding]; other site 424182006592 Qo binding site; other site 424182006593 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 424182006594 interchain domain interface [polypeptide binding]; other site 424182006595 intrachain domain interface; other site 424182006596 Qi binding site; other site 424182006597 Qo binding site; other site 424182006598 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 424182006599 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 424182006600 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 424182006601 [2Fe-2S] cluster binding site [ion binding]; other site 424182006602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 424182006603 putative catalytic site [active] 424182006604 putative metal binding site [ion binding]; other site 424182006605 putative phosphate binding site [ion binding]; other site 424182006606 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 424182006607 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182006608 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 424182006609 Walker A/P-loop; other site 424182006610 ATP binding site [chemical binding]; other site 424182006611 Q-loop/lid; other site 424182006612 ABC transporter signature motif; other site 424182006613 Walker B; other site 424182006614 D-loop; other site 424182006615 H-loop/switch region; other site 424182006616 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 424182006617 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182006618 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 424182006619 Walker A/P-loop; other site 424182006620 ATP binding site [chemical binding]; other site 424182006621 Q-loop/lid; other site 424182006622 ABC transporter signature motif; other site 424182006623 Walker B; other site 424182006624 D-loop; other site 424182006625 H-loop/switch region; other site 424182006626 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 424182006627 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 424182006628 active site 424182006629 metal binding site [ion binding]; metal-binding site 424182006630 hexamer interface [polypeptide binding]; other site 424182006631 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 424182006632 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 424182006633 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 424182006634 PhoU domain; Region: PhoU; pfam01895 424182006635 PhoU domain; Region: PhoU; pfam01895 424182006636 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 424182006637 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 424182006638 Predicted small metal-binding protein [Function unknown]; Region: COG5466 424182006639 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 424182006640 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 424182006641 active site 424182006642 NTP binding site [chemical binding]; other site 424182006643 metal binding triad [ion binding]; metal-binding site 424182006644 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 424182006645 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 424182006646 putative active site [active] 424182006647 putative CoA binding site [chemical binding]; other site 424182006648 nudix motif; other site 424182006649 metal binding site [ion binding]; metal-binding site 424182006650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 424182006651 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 424182006652 MoxR-like ATPases [General function prediction only]; Region: COG0714 424182006653 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 424182006654 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 424182006655 Protein of unknown function DUF58; Region: DUF58; pfam01882 424182006656 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 424182006657 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 424182006658 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 424182006659 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 424182006660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182006661 Coenzyme A binding pocket [chemical binding]; other site 424182006662 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 424182006663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182006664 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 424182006665 putative substrate binding pocket [chemical binding]; other site 424182006666 putative dimerization interface [polypeptide binding]; other site 424182006667 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 424182006668 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 424182006669 D-galactonate transporter; Region: 2A0114; TIGR00893 424182006670 putative substrate translocation pore; other site 424182006671 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 424182006672 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182006673 Coenzyme A binding pocket [chemical binding]; other site 424182006674 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 424182006675 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 424182006676 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 424182006677 putative dimer interface [polypeptide binding]; other site 424182006678 N-terminal domain interface [polypeptide binding]; other site 424182006679 putative substrate binding pocket (H-site) [chemical binding]; other site 424182006680 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 424182006681 nudix motif; other site 424182006682 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 424182006683 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 424182006684 putative active site [active] 424182006685 putative metal binding site [ion binding]; other site 424182006686 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 424182006687 active site 424182006688 metal binding site [ion binding]; metal-binding site 424182006689 2-isopropylmalate synthase; Validated; Region: PRK03739 424182006690 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 424182006691 active site 424182006692 catalytic residues [active] 424182006693 metal binding site [ion binding]; metal-binding site 424182006694 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 424182006695 Protein of unknown function (DUF497); Region: DUF497; pfam04365 424182006696 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 424182006697 benzoate transporter; Region: benE; TIGR00843 424182006698 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 424182006699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 424182006700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 424182006701 RNA polymerase sigma factor; Provisional; Region: PRK12536 424182006702 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182006703 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 424182006704 DNA binding residues [nucleotide binding] 424182006705 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 424182006706 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 424182006707 oligomer interface [polypeptide binding]; other site 424182006708 active site residues [active] 424182006709 Hydrogenase/urease accessory protein [Posttranslational modification, protein turnover, chaperones]; Region: HupE; COG2370 424182006710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 424182006711 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 424182006712 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 424182006713 Cation efflux family; Region: Cation_efflux; cl00316 424182006714 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 424182006715 dimer interface [polypeptide binding]; other site 424182006716 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182006717 ligand binding site [chemical binding]; other site 424182006718 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 424182006719 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 424182006720 dimerization interface [polypeptide binding]; other site 424182006721 ligand binding site [chemical binding]; other site 424182006722 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 424182006723 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 424182006724 dimerization interface [polypeptide binding]; other site 424182006725 putative DNA binding site [nucleotide binding]; other site 424182006726 putative Zn2+ binding site [ion binding]; other site 424182006727 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 424182006728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182006729 Walker A/P-loop; other site 424182006730 ATP binding site [chemical binding]; other site 424182006731 Q-loop/lid; other site 424182006732 ABC transporter signature motif; other site 424182006733 Walker B; other site 424182006734 D-loop; other site 424182006735 H-loop/switch region; other site 424182006736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182006737 dimer interface [polypeptide binding]; other site 424182006738 conserved gate region; other site 424182006739 putative PBP binding loops; other site 424182006740 ABC-ATPase subunit interface; other site 424182006741 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 424182006742 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 424182006743 thymidine kinase; Provisional; Region: PRK04296 424182006744 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 424182006745 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 424182006746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 424182006747 Autoinducer binding domain; Region: Autoind_bind; pfam03472 424182006748 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 424182006749 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 424182006750 DNA binding residues [nucleotide binding] 424182006751 dimerization interface [polypeptide binding]; other site 424182006752 hypothetical protein; Provisional; Region: PRK05208 424182006753 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 424182006754 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 424182006755 N-terminal plug; other site 424182006756 ligand-binding site [chemical binding]; other site 424182006757 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 424182006758 anthranilate synthase; Provisional; Region: PRK13566 424182006759 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 424182006760 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 424182006761 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 424182006762 glutamine binding [chemical binding]; other site 424182006763 catalytic triad [active] 424182006764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 424182006765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182006766 Coenzyme A binding pocket [chemical binding]; other site 424182006767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182006768 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 424182006769 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 424182006770 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 424182006771 Zn2+ binding site [ion binding]; other site 424182006772 Mg2+ binding site [ion binding]; other site 424182006773 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 424182006774 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 424182006775 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 424182006776 active site 424182006777 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 424182006778 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182006779 Coenzyme A binding pocket [chemical binding]; other site 424182006780 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 424182006781 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 424182006782 active site 424182006783 catalytic site [active] 424182006784 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182006785 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 424182006786 substrate binding site [chemical binding]; other site 424182006787 ATP binding site [chemical binding]; other site 424182006788 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 424182006789 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182006790 Protein of unknown function (DUF2026); Region: DUF2026; pfam09641 424182006791 GTP-binding protein Der; Reviewed; Region: PRK00093 424182006792 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 424182006793 G1 box; other site 424182006794 GTP/Mg2+ binding site [chemical binding]; other site 424182006795 Switch I region; other site 424182006796 G2 box; other site 424182006797 Switch II region; other site 424182006798 G3 box; other site 424182006799 G4 box; other site 424182006800 G5 box; other site 424182006801 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 424182006802 G1 box; other site 424182006803 GTP/Mg2+ binding site [chemical binding]; other site 424182006804 Switch I region; other site 424182006805 G2 box; other site 424182006806 G3 box; other site 424182006807 Switch II region; other site 424182006808 G4 box; other site 424182006809 G5 box; other site 424182006810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 424182006811 Predicted membrane protein [Function unknown]; Region: COG4094 424182006812 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 424182006813 NodB motif; other site 424182006814 putative active site [active] 424182006815 putative catalytic site [active] 424182006816 microcin B17 transporter; Reviewed; Region: PRK11098 424182006817 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 424182006818 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 424182006819 active site 424182006820 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 424182006821 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 424182006822 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 424182006823 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 424182006824 NAD binding site [chemical binding]; other site 424182006825 homotetramer interface [polypeptide binding]; other site 424182006826 homodimer interface [polypeptide binding]; other site 424182006827 substrate binding site [chemical binding]; other site 424182006828 active site 424182006829 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 424182006830 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 424182006831 catalytic loop [active] 424182006832 iron binding site [ion binding]; other site 424182006833 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 424182006834 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 424182006835 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 424182006836 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 424182006837 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 424182006838 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 424182006839 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 424182006840 XdhC Rossmann domain; Region: XdhC_C; pfam13478 424182006841 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182006842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182006843 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 424182006844 dimerization interface [polypeptide binding]; other site 424182006845 substrate binding pocket [chemical binding]; other site 424182006846 Predicted membrane protein [Function unknown]; Region: COG3748 424182006847 Protein of unknown function (DUF989); Region: DUF989; pfam06181 424182006848 Cytochrome c; Region: Cytochrom_C; pfam00034 424182006849 guanine deaminase; Provisional; Region: PRK09228 424182006850 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 424182006851 active site 424182006852 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 424182006853 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 424182006854 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 424182006855 phosphate binding site [ion binding]; other site 424182006856 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 424182006857 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182006858 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182006859 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 424182006860 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 424182006861 Sporulation related domain; Region: SPOR; pfam05036 424182006862 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 424182006863 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 424182006864 active site 424182006865 metal binding site [ion binding]; metal-binding site 424182006866 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 424182006867 active site 424182006868 homotetramer interface [polypeptide binding]; other site 424182006869 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 424182006870 ureidoglycolate hydrolase; Provisional; Region: PRK03606 424182006871 Uncharacterized conserved protein [Function unknown]; Region: COG2361 424182006872 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 424182006873 active site 424182006874 NTP binding site [chemical binding]; other site 424182006875 metal binding triad [ion binding]; metal-binding site 424182006876 antibiotic binding site [chemical binding]; other site 424182006877 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 424182006878 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 424182006879 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 424182006880 active site 424182006881 catalytic site [active] 424182006882 tetramer interface [polypeptide binding]; other site 424182006883 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 424182006884 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182006885 Uncharacterized conserved protein [Function unknown]; Region: COG4121 424182006886 PAS fold; Region: PAS_7; pfam12860 424182006887 PAS fold; Region: PAS_4; pfam08448 424182006888 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 424182006889 putative active site [active] 424182006890 heme pocket [chemical binding]; other site 424182006891 PAS fold; Region: PAS_7; pfam12860 424182006892 PAS fold; Region: PAS_7; pfam12860 424182006893 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 424182006894 dimer interface [polypeptide binding]; other site 424182006895 phosphorylation site [posttranslational modification] 424182006896 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 424182006897 ATP binding site [chemical binding]; other site 424182006898 Mg2+ binding site [ion binding]; other site 424182006899 G-X-G motif; other site 424182006900 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 424182006901 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 424182006902 active site 424182006903 phosphorylation site [posttranslational modification] 424182006904 intermolecular recognition site; other site 424182006905 Response regulator receiver domain; Region: Response_reg; pfam00072 424182006906 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 424182006907 active site 424182006908 phosphorylation site [posttranslational modification] 424182006909 intermolecular recognition site; other site 424182006910 dimerization interface [polypeptide binding]; other site 424182006911 helicase 45; Provisional; Region: PTZ00424 424182006912 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 424182006913 ATP binding site [chemical binding]; other site 424182006914 Mg++ binding site [ion binding]; other site 424182006915 motif III; other site 424182006916 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 424182006917 nucleotide binding region [chemical binding]; other site 424182006918 ATP-binding site [chemical binding]; other site 424182006919 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 424182006920 EamA-like transporter family; Region: EamA; pfam00892 424182006921 Predicted membrane protein [Function unknown]; Region: COG2259 424182006922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 424182006923 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182006924 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182006925 EamA-like transporter family; Region: EamA; pfam00892 424182006926 EamA-like transporter family; Region: EamA; cl17759 424182006927 Uncharacterized conserved protein [Function unknown]; Region: COG2308 424182006928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 424182006929 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 424182006930 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 424182006931 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 424182006932 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 424182006933 Methyltransferase domain; Region: Methyltransf_23; pfam13489 424182006934 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 424182006935 S-adenosylmethionine binding site [chemical binding]; other site 424182006936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182006937 Coenzyme A binding pocket [chemical binding]; other site 424182006938 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 424182006939 putative metal binding site [ion binding]; other site 424182006940 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182006941 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 424182006942 catalytic core [active] 424182006943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 424182006944 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 424182006945 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182006946 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 424182006947 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 424182006948 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 424182006949 TM-ABC transporter signature motif; other site 424182006950 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182006951 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182006952 Walker A/P-loop; other site 424182006953 ATP binding site [chemical binding]; other site 424182006954 Q-loop/lid; other site 424182006955 ABC transporter signature motif; other site 424182006956 Walker B; other site 424182006957 D-loop; other site 424182006958 H-loop/switch region; other site 424182006959 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182006960 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 424182006961 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 424182006962 putative ligand binding site [chemical binding]; other site 424182006963 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182006964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182006965 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 424182006966 putative dimerization interface [polypeptide binding]; other site 424182006967 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182006968 MarR family; Region: MarR; pfam01047 424182006969 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 424182006970 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 424182006971 dimerization interface [polypeptide binding]; other site 424182006972 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 424182006973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182006974 dimer interface [polypeptide binding]; other site 424182006975 putative CheW interface [polypeptide binding]; other site 424182006976 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 424182006977 O-Antigen ligase; Region: Wzy_C; pfam04932 424182006978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182006979 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 424182006980 active site 424182006981 Beta-1,4-xylanase [Carbohydrate transport and metabolism]; Region: XynA; COG3693 424182006982 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 424182006983 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 424182006984 active site 424182006985 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 424182006986 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 424182006987 active site 424182006988 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 424182006989 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 424182006990 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 424182006991 Chain length determinant protein; Region: Wzz; pfam02706 424182006992 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 424182006993 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 424182006994 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 424182006995 active site 424182006996 substrate binding site [chemical binding]; other site 424182006997 metal binding site [ion binding]; metal-binding site 424182006998 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 424182006999 active site 424182007000 NTP binding site [chemical binding]; other site 424182007001 metal binding triad [ion binding]; metal-binding site 424182007002 antibiotic binding site [chemical binding]; other site 424182007003 Protein of unknown function DUF86; Region: DUF86; cl01031 424182007004 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 424182007005 apolar tunnel; other site 424182007006 heme binding site [chemical binding]; other site 424182007007 dimerization interface [polypeptide binding]; other site 424182007008 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 424182007009 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 424182007010 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 424182007011 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182007012 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 424182007013 allantoate amidohydrolase; Reviewed; Region: PRK12893 424182007014 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 424182007015 active site 424182007016 metal binding site [ion binding]; metal-binding site 424182007017 dimer interface [polypeptide binding]; other site 424182007018 phenylhydantoinase; Validated; Region: PRK08323 424182007019 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 424182007020 tetramer interface [polypeptide binding]; other site 424182007021 active site 424182007022 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_31; cd04690 424182007023 nudix motif; other site 424182007024 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 424182007025 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182007026 Walker A/P-loop; other site 424182007027 ATP binding site [chemical binding]; other site 424182007028 Q-loop/lid; other site 424182007029 ABC transporter signature motif; other site 424182007030 Walker B; other site 424182007031 D-loop; other site 424182007032 H-loop/switch region; other site 424182007033 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182007034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007035 dimer interface [polypeptide binding]; other site 424182007036 conserved gate region; other site 424182007037 ABC-ATPase subunit interface; other site 424182007038 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182007039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007040 dimer interface [polypeptide binding]; other site 424182007041 conserved gate region; other site 424182007042 putative PBP binding loops; other site 424182007043 ABC-ATPase subunit interface; other site 424182007044 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182007045 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 424182007046 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182007047 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182007048 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 424182007049 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 424182007050 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 424182007051 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 424182007052 ligand binding site [chemical binding]; other site 424182007053 flexible hinge region; other site 424182007054 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 424182007055 putative switch regulator; other site 424182007056 non-specific DNA interactions [nucleotide binding]; other site 424182007057 DNA binding site [nucleotide binding] 424182007058 sequence specific DNA binding site [nucleotide binding]; other site 424182007059 putative cAMP binding site [chemical binding]; other site 424182007060 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 424182007061 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 424182007062 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 424182007063 UreF; Region: UreF; pfam01730 424182007064 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 424182007065 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 424182007066 dimer interface [polypeptide binding]; other site 424182007067 catalytic residues [active] 424182007068 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 424182007069 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 424182007070 catalytic triad [active] 424182007071 dimer interface [polypeptide binding]; other site 424182007072 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 424182007073 urease subunit alpha; Reviewed; Region: ureC; PRK13207 424182007074 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 424182007075 subunit interactions [polypeptide binding]; other site 424182007076 active site 424182007077 flap region; other site 424182007078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 424182007079 Uncharacterized conserved protein [Function unknown]; Region: COG3791 424182007080 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 424182007081 gamma-beta subunit interface [polypeptide binding]; other site 424182007082 alpha-beta subunit interface [polypeptide binding]; other site 424182007083 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 424182007084 alpha-gamma subunit interface [polypeptide binding]; other site 424182007085 beta-gamma subunit interface [polypeptide binding]; other site 424182007086 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 424182007087 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 424182007088 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 424182007089 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 424182007090 Walker A/P-loop; other site 424182007091 ATP binding site [chemical binding]; other site 424182007092 Q-loop/lid; other site 424182007093 ABC transporter signature motif; other site 424182007094 Walker B; other site 424182007095 D-loop; other site 424182007096 H-loop/switch region; other site 424182007097 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 424182007098 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 424182007099 Walker A/P-loop; other site 424182007100 ATP binding site [chemical binding]; other site 424182007101 Q-loop/lid; other site 424182007102 ABC transporter signature motif; other site 424182007103 Walker B; other site 424182007104 D-loop; other site 424182007105 H-loop/switch region; other site 424182007106 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 424182007107 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 424182007108 TM-ABC transporter signature motif; other site 424182007109 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 424182007110 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182007111 TM-ABC transporter signature motif; other site 424182007112 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 424182007113 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 424182007114 putative ligand binding site [chemical binding]; other site 424182007115 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 424182007116 glutamine synthetase; Region: PLN02284 424182007117 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 424182007118 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 424182007119 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 424182007120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182007121 NAD(P) binding site [chemical binding]; other site 424182007122 active site 424182007123 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 424182007124 Na binding site [ion binding]; other site 424182007125 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182007126 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 424182007127 dimer interface [polypeptide binding]; other site 424182007128 phosphorylation site [posttranslational modification] 424182007129 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 424182007130 ATP binding site [chemical binding]; other site 424182007131 Mg2+ binding site [ion binding]; other site 424182007132 G-X-G motif; other site 424182007133 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 424182007134 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 424182007135 active site 424182007136 phosphorylation site [posttranslational modification] 424182007137 intermolecular recognition site; other site 424182007138 dimerization interface [polypeptide binding]; other site 424182007139 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182007140 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 424182007141 active site 424182007142 phosphorylation site [posttranslational modification] 424182007143 intermolecular recognition site; other site 424182007144 dimerization interface [polypeptide binding]; other site 424182007145 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 424182007146 DNA binding residues [nucleotide binding] 424182007147 dimerization interface [polypeptide binding]; other site 424182007148 Predicted ATPase [General function prediction only]; Region: COG3911 424182007149 AAA domain; Region: AAA_28; pfam13521 424182007150 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 424182007151 Putative catalytic NodB homology domain of uncharacterized BH1302 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH1302_like; cd10956 424182007152 NodB motif; other site 424182007153 putative active site [active] 424182007154 putative catalytic site [active] 424182007155 putative Zn binding site [ion binding]; other site 424182007156 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 424182007157 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 424182007158 dimerization interface [polypeptide binding]; other site 424182007159 ligand binding site [chemical binding]; other site 424182007160 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 424182007161 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 424182007162 Walker A/P-loop; other site 424182007163 ATP binding site [chemical binding]; other site 424182007164 Q-loop/lid; other site 424182007165 ABC transporter signature motif; other site 424182007166 Walker B; other site 424182007167 D-loop; other site 424182007168 H-loop/switch region; other site 424182007169 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182007170 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 424182007171 Walker A/P-loop; other site 424182007172 ATP binding site [chemical binding]; other site 424182007173 Q-loop/lid; other site 424182007174 ABC transporter signature motif; other site 424182007175 Walker B; other site 424182007176 D-loop; other site 424182007177 H-loop/switch region; other site 424182007178 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 424182007179 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 424182007180 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 424182007181 TM-ABC transporter signature motif; other site 424182007182 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182007183 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 424182007184 TM-ABC transporter signature motif; other site 424182007185 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 424182007186 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182007187 active site 424182007188 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 424182007189 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 424182007190 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182007191 Coenzyme A binding pocket [chemical binding]; other site 424182007192 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182007193 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 424182007194 active site 424182007195 phosphorylation site [posttranslational modification] 424182007196 intermolecular recognition site; other site 424182007197 dimerization interface [polypeptide binding]; other site 424182007198 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 424182007199 DNA binding site [nucleotide binding] 424182007200 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 424182007201 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182007202 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 424182007203 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182007204 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 424182007205 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 424182007206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 424182007207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 424182007208 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 424182007209 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 424182007210 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 424182007211 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 424182007212 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 424182007213 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 424182007214 RNA binding surface [nucleotide binding]; other site 424182007215 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 424182007216 active site 424182007217 Methyltransferase domain; Region: Methyltransf_24; pfam13578 424182007218 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 424182007219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182007220 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 424182007221 DNA binding residues [nucleotide binding] 424182007222 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 424182007223 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 424182007224 GDP-binding site [chemical binding]; other site 424182007225 ACT binding site; other site 424182007226 IMP binding site; other site 424182007227 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182007228 EamA-like transporter family; Region: EamA; pfam00892 424182007229 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 424182007230 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 424182007231 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182007232 catalytic residue [active] 424182007233 Predicted esterase [General function prediction only]; Region: COG0400 424182007234 putative hydrolase; Provisional; Region: PRK11460 424182007235 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 424182007236 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182007237 Zn binding site [ion binding]; other site 424182007238 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 424182007239 Zn binding site [ion binding]; other site 424182007240 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 424182007241 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 424182007242 FAD binding pocket [chemical binding]; other site 424182007243 FAD binding motif [chemical binding]; other site 424182007244 phosphate binding motif [ion binding]; other site 424182007245 NAD binding pocket [chemical binding]; other site 424182007246 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 424182007247 ligand binding site [chemical binding]; other site 424182007248 active site 424182007249 UGI interface [polypeptide binding]; other site 424182007250 catalytic site [active] 424182007251 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182007252 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 424182007253 dimer interface [polypeptide binding]; other site 424182007254 active site 424182007255 metal binding site [ion binding]; metal-binding site 424182007256 glutathione binding site [chemical binding]; other site 424182007257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 424182007258 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 424182007259 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 424182007260 Walker A/P-loop; other site 424182007261 ATP binding site [chemical binding]; other site 424182007262 Q-loop/lid; other site 424182007263 ABC transporter signature motif; other site 424182007264 Walker B; other site 424182007265 D-loop; other site 424182007266 H-loop/switch region; other site 424182007267 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 424182007268 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 424182007269 ABC-ATPase subunit interface; other site 424182007270 dimer interface [polypeptide binding]; other site 424182007271 putative PBP binding regions; other site 424182007272 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 424182007273 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 424182007274 putative hemin binding site; other site 424182007275 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 424182007276 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugX; COG3721 424182007277 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 424182007278 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 424182007279 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 424182007280 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 424182007281 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 424182007282 putative active site [active] 424182007283 putative substrate binding site [chemical binding]; other site 424182007284 putative cosubstrate binding site; other site 424182007285 catalytic site [active] 424182007286 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 424182007287 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 424182007288 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 424182007289 ATP binding site [chemical binding]; other site 424182007290 Mg2+ binding site [ion binding]; other site 424182007291 G-X-G motif; other site 424182007292 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182007293 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 424182007294 active site 424182007295 phosphorylation site [posttranslational modification] 424182007296 intermolecular recognition site; other site 424182007297 dimerization interface [polypeptide binding]; other site 424182007298 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 424182007299 DNA binding site [nucleotide binding] 424182007300 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182007301 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182007302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 424182007303 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 424182007304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 424182007305 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 424182007306 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 424182007307 putative ligand binding residues [chemical binding]; other site 424182007308 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 424182007309 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 424182007310 ABC-ATPase subunit interface; other site 424182007311 dimer interface [polypeptide binding]; other site 424182007312 putative PBP binding regions; other site 424182007313 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 424182007314 ABC-ATPase subunit interface; other site 424182007315 dimer interface [polypeptide binding]; other site 424182007316 putative PBP binding regions; other site 424182007317 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 424182007318 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 424182007319 Walker A/P-loop; other site 424182007320 ATP binding site [chemical binding]; other site 424182007321 Q-loop/lid; other site 424182007322 ABC transporter signature motif; other site 424182007323 Walker B; other site 424182007324 D-loop; other site 424182007325 H-loop/switch region; other site 424182007326 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 424182007327 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 424182007328 dimerization interface [polypeptide binding]; other site 424182007329 DPS ferroxidase diiron center [ion binding]; other site 424182007330 ion pore; other site 424182007331 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 424182007332 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182007333 active site 424182007334 catalytic tetrad [active] 424182007335 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 424182007336 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 424182007337 putative substrate translocation pore; other site 424182007338 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182007339 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182007340 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 424182007341 dimerization interface [polypeptide binding]; other site 424182007342 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182007343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182007344 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 424182007345 putative effector binding pocket; other site 424182007346 putative dimerization interface [polypeptide binding]; other site 424182007347 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 424182007348 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182007349 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182007350 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182007351 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 424182007352 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 424182007353 putative catalytic site [active] 424182007354 putative metal binding site [ion binding]; other site 424182007355 putative phosphate binding site [ion binding]; other site 424182007356 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 424182007357 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 424182007358 putative active site [active] 424182007359 catalytic site [active] 424182007360 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 424182007361 putative active site [active] 424182007362 catalytic site [active] 424182007363 pyridoxamine kinase; Validated; Region: PRK05756 424182007364 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 424182007365 pyridoxal binding site [chemical binding]; other site 424182007366 dimer interface [polypeptide binding]; other site 424182007367 ATP binding site [chemical binding]; other site 424182007368 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 424182007369 active site clefts [active] 424182007370 zinc binding site [ion binding]; other site 424182007371 dimer interface [polypeptide binding]; other site 424182007372 Transglycosylase SLT domain; Region: SLT_2; pfam13406 424182007373 murein hydrolase B; Provisional; Region: PRK10760; cl17906 424182007374 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 424182007375 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 424182007376 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 424182007377 putative substrate translocation pore; other site 424182007378 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 424182007379 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 424182007380 ligand binding site [chemical binding]; other site 424182007381 homodimer interface [polypeptide binding]; other site 424182007382 NAD(P) binding site [chemical binding]; other site 424182007383 trimer interface B [polypeptide binding]; other site 424182007384 trimer interface A [polypeptide binding]; other site 424182007385 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 424182007386 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 424182007387 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 424182007388 Flavin Reductases; Region: FlaRed; cl00801 424182007389 Nitroreductase-like family 5. 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_5; cd02148 424182007390 putative FMN binding site [chemical binding]; other site 424182007391 pyrimidine utilization protein D; Region: RutD; TIGR03611 424182007392 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 424182007393 homotrimer interaction site [polypeptide binding]; other site 424182007394 putative active site [active] 424182007395 Isochorismatase family; Region: Isochorismatase; pfam00857 424182007396 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 424182007397 catalytic triad [active] 424182007398 conserved cis-peptide bond; other site 424182007399 pyrimidine utilization protein A; Region: RutA; TIGR03612 424182007400 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 424182007401 active site 424182007402 dimer interface [polypeptide binding]; other site 424182007403 non-prolyl cis peptide bond; other site 424182007404 insertion regions; other site 424182007405 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; cd00232 424182007406 heme binding pocket [chemical binding]; other site 424182007407 heme ligand [chemical binding]; other site 424182007408 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 424182007409 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 424182007410 inhibitor site; inhibition site 424182007411 active site 424182007412 dimer interface [polypeptide binding]; other site 424182007413 catalytic residue [active] 424182007414 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182007415 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182007416 DNA-binding site [nucleotide binding]; DNA binding site 424182007417 FCD domain; Region: FCD; pfam07729 424182007418 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182007419 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182007420 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182007421 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007422 dimer interface [polypeptide binding]; other site 424182007423 conserved gate region; other site 424182007424 putative PBP binding loops; other site 424182007425 ABC-ATPase subunit interface; other site 424182007426 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182007427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007428 dimer interface [polypeptide binding]; other site 424182007429 conserved gate region; other site 424182007430 putative PBP binding loops; other site 424182007431 ABC-ATPase subunit interface; other site 424182007432 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182007433 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182007434 Walker A/P-loop; other site 424182007435 ATP binding site [chemical binding]; other site 424182007436 Q-loop/lid; other site 424182007437 ABC transporter signature motif; other site 424182007438 Walker B; other site 424182007439 D-loop; other site 424182007440 H-loop/switch region; other site 424182007441 TOBE domain; Region: TOBE_2; pfam08402 424182007442 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 424182007443 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182007444 substrate binding site [chemical binding]; other site 424182007445 ATP binding site [chemical binding]; other site 424182007446 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 424182007447 homodimer interface [polypeptide binding]; other site 424182007448 homotetramer interface [polypeptide binding]; other site 424182007449 active site pocket [active] 424182007450 cleavage site 424182007451 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 424182007452 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 424182007453 homodimer interface [polypeptide binding]; other site 424182007454 substrate-cofactor binding pocket; other site 424182007455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182007456 catalytic residue [active] 424182007457 cell density-dependent motility repressor; Provisional; Region: PRK10082 424182007458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182007459 LysR substrate binding domain; Region: LysR_substrate; pfam03466 424182007460 dimerization interface [polypeptide binding]; other site 424182007461 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 424182007462 Beta-lactamase; Region: Beta-lactamase; pfam00144 424182007463 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182007464 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182007465 Walker A/P-loop; other site 424182007466 ATP binding site [chemical binding]; other site 424182007467 Q-loop/lid; other site 424182007468 ABC transporter signature motif; other site 424182007469 Walker B; other site 424182007470 D-loop; other site 424182007471 H-loop/switch region; other site 424182007472 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182007473 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182007474 Walker A/P-loop; other site 424182007475 ATP binding site [chemical binding]; other site 424182007476 Q-loop/lid; other site 424182007477 ABC transporter signature motif; other site 424182007478 Walker B; other site 424182007479 D-loop; other site 424182007480 H-loop/switch region; other site 424182007481 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182007482 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182007483 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 424182007484 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007485 dimer interface [polypeptide binding]; other site 424182007486 conserved gate region; other site 424182007487 putative PBP binding loops; other site 424182007488 ABC-ATPase subunit interface; other site 424182007489 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182007490 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007491 dimer interface [polypeptide binding]; other site 424182007492 conserved gate region; other site 424182007493 putative PBP binding loops; other site 424182007494 ABC-ATPase subunit interface; other site 424182007495 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182007496 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 424182007497 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 424182007498 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 424182007499 active site 424182007500 dimer interface [polypeptide binding]; other site 424182007501 Predicted integral membrane protein [Function unknown]; Region: COG0392 424182007502 Uncharacterized conserved protein [Function unknown]; Region: COG2898 424182007503 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 424182007504 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 424182007505 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 424182007506 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182007507 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182007508 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182007509 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182007510 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182007511 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 424182007512 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 424182007513 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 424182007514 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 424182007515 dimer interface [polypeptide binding]; other site 424182007516 phosphorylation site [posttranslational modification] 424182007517 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 424182007518 ATP binding site [chemical binding]; other site 424182007519 Mg2+ binding site [ion binding]; other site 424182007520 G-X-G motif; other site 424182007521 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182007522 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 424182007523 active site 424182007524 phosphorylation site [posttranslational modification] 424182007525 intermolecular recognition site; other site 424182007526 dimerization interface [polypeptide binding]; other site 424182007527 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 424182007528 DNA binding site [nucleotide binding] 424182007529 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182007530 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182007531 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 424182007532 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 424182007533 putative active site [active] 424182007534 putative FMN binding site [chemical binding]; other site 424182007535 putative substrate binding site [chemical binding]; other site 424182007536 putative catalytic residue [active] 424182007537 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 424182007538 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 424182007539 DctM-like transporters; Region: DctM; pfam06808 424182007540 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 424182007541 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 424182007542 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 424182007543 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 424182007544 classical (c) SDRs; Region: SDR_c; cd05233 424182007545 NAD(P) binding site [chemical binding]; other site 424182007546 active site 424182007547 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182007548 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 424182007549 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182007550 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 424182007551 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 424182007552 active site 424182007553 acyl-CoA synthetase; Validated; Region: PRK07470 424182007554 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 424182007555 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 424182007556 acyl-activating enzyme (AAE) consensus motif; other site 424182007557 putative AMP binding site [chemical binding]; other site 424182007558 putative active site [active] 424182007559 putative CoA binding site [chemical binding]; other site 424182007560 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182007561 classical (c) SDRs; Region: SDR_c; cd05233 424182007562 NAD(P) binding site [chemical binding]; other site 424182007563 active site 424182007564 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 424182007565 trimer interface [polypeptide binding]; other site 424182007566 putative Zn binding site [ion binding]; other site 424182007567 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182007568 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 424182007569 putative DNA binding site [nucleotide binding]; other site 424182007570 putative Zn2+ binding site [ion binding]; other site 424182007571 AsnC family; Region: AsnC_trans_reg; pfam01037 424182007572 Isochorismatase family; Region: Isochorismatase; pfam00857 424182007573 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 424182007574 catalytic triad [active] 424182007575 dimer interface [polypeptide binding]; other site 424182007576 conserved cis-peptide bond; other site 424182007577 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182007578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182007579 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 424182007580 putative effector binding pocket; other site 424182007581 dimerization interface [polypeptide binding]; other site 424182007582 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 424182007583 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 424182007584 NAD(P) binding site [chemical binding]; other site 424182007585 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 424182007586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182007587 NAD(P) binding site [chemical binding]; other site 424182007588 active site 424182007589 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 424182007590 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182007591 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182007592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182007593 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 424182007594 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 424182007595 ATP binding site [chemical binding]; other site 424182007596 active site 424182007597 substrate binding site [chemical binding]; other site 424182007598 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182007599 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182007600 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 424182007601 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182007602 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182007603 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 424182007604 Protein export membrane protein; Region: SecD_SecF; cl14618 424182007605 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 424182007606 elongation factor P; Validated; Region: PRK00529 424182007607 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 424182007608 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 424182007609 RNA binding site [nucleotide binding]; other site 424182007610 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 424182007611 RNA binding site [nucleotide binding]; other site 424182007612 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 424182007613 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 424182007614 motif 1; other site 424182007615 dimer interface [polypeptide binding]; other site 424182007616 active site 424182007617 motif 2; other site 424182007618 motif 3; other site 424182007619 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 424182007620 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 424182007621 FeS/SAM binding site; other site 424182007622 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 424182007623 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182007624 AsnC family; Region: AsnC_trans_reg; pfam01037 424182007625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182007626 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182007627 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 424182007628 dimerization interface [polypeptide binding]; other site 424182007629 substrate binding pocket [chemical binding]; other site 424182007630 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 424182007631 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182007632 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 424182007633 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182007634 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 424182007635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007636 dimer interface [polypeptide binding]; other site 424182007637 conserved gate region; other site 424182007638 putative PBP binding loops; other site 424182007639 ABC-ATPase subunit interface; other site 424182007640 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182007641 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 424182007642 Walker A/P-loop; other site 424182007643 ATP binding site [chemical binding]; other site 424182007644 Q-loop/lid; other site 424182007645 ABC transporter signature motif; other site 424182007646 Walker B; other site 424182007647 D-loop; other site 424182007648 H-loop/switch region; other site 424182007649 TOBE domain; Region: TOBE; cl01440 424182007650 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 424182007651 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 424182007652 putative active site pocket [active] 424182007653 cleavage site 424182007654 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 424182007655 ThiS interaction site; other site 424182007656 putative active site [active] 424182007657 tetramer interface [polypeptide binding]; other site 424182007658 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 424182007659 thiS-thiF/thiG interaction site; other site 424182007660 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 424182007661 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 424182007662 ThiC-associated domain; Region: ThiC-associated; pfam13667 424182007663 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 424182007664 acyl carrier protein; Provisional; Region: PRK07081 424182007665 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 424182007666 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 424182007667 active site 424182007668 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 424182007669 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 424182007670 dimer interface [polypeptide binding]; other site 424182007671 motif 1; other site 424182007672 active site 424182007673 motif 2; other site 424182007674 motif 3; other site 424182007675 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 424182007676 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 424182007677 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 424182007678 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 424182007679 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 424182007680 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182007681 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 424182007682 Walker A/P-loop; other site 424182007683 Q-loop/lid; other site 424182007684 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 424182007685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182007686 ABC transporter signature motif; other site 424182007687 Walker B; other site 424182007688 D-loop; other site 424182007689 H-loop/switch region; other site 424182007690 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 424182007691 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 424182007692 ligand binding site [chemical binding]; other site 424182007693 flexible hinge region; other site 424182007694 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 424182007695 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 424182007696 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 424182007697 catalytic loop [active] 424182007698 iron binding site [ion binding]; other site 424182007699 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 424182007700 cyclase homology domain; Region: CHD; cd07302 424182007701 nucleotidyl binding site; other site 424182007702 metal binding site [ion binding]; metal-binding site 424182007703 dimer interface [polypeptide binding]; other site 424182007704 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 424182007705 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 424182007706 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 424182007707 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 424182007708 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 424182007709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182007710 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 424182007711 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 424182007712 NodB motif; other site 424182007713 putative active site [active] 424182007714 putative catalytic site [active] 424182007715 putative Zn binding site [ion binding]; other site 424182007716 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 424182007717 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 424182007718 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182007719 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182007720 Walker A/P-loop; other site 424182007721 ATP binding site [chemical binding]; other site 424182007722 Q-loop/lid; other site 424182007723 ABC transporter signature motif; other site 424182007724 Walker B; other site 424182007725 D-loop; other site 424182007726 H-loop/switch region; other site 424182007727 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182007728 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182007729 Walker A/P-loop; other site 424182007730 ATP binding site [chemical binding]; other site 424182007731 Q-loop/lid; other site 424182007732 ABC transporter signature motif; other site 424182007733 Walker B; other site 424182007734 D-loop; other site 424182007735 H-loop/switch region; other site 424182007736 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182007737 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182007738 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 424182007739 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182007740 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007741 dimer interface [polypeptide binding]; other site 424182007742 conserved gate region; other site 424182007743 putative PBP binding loops; other site 424182007744 ABC-ATPase subunit interface; other site 424182007745 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 424182007746 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 424182007747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007748 dimer interface [polypeptide binding]; other site 424182007749 conserved gate region; other site 424182007750 putative PBP binding loops; other site 424182007751 ABC-ATPase subunit interface; other site 424182007752 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 424182007753 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 424182007754 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 424182007755 putative ADP-binding pocket [chemical binding]; other site 424182007756 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182007757 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 424182007758 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 424182007759 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 424182007760 sugar efflux transporter; Region: 2A0120; TIGR00899 424182007761 Uncharacterized conserved protein [Function unknown]; Region: COG5476 424182007762 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 424182007763 MlrC C-terminus; Region: MlrC_C; pfam07171 424182007764 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 424182007765 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 424182007766 active site 424182007767 short chain dehydrogenase; Provisional; Region: PRK07074 424182007768 classical (c) SDRs; Region: SDR_c; cd05233 424182007769 NAD(P) binding site [chemical binding]; other site 424182007770 active site 424182007771 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 424182007772 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 424182007773 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 424182007774 putative active site [active] 424182007775 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182007776 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182007777 Walker A/P-loop; other site 424182007778 ATP binding site [chemical binding]; other site 424182007779 Q-loop/lid; other site 424182007780 ABC transporter signature motif; other site 424182007781 Walker B; other site 424182007782 D-loop; other site 424182007783 H-loop/switch region; other site 424182007784 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182007785 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182007786 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182007787 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007788 dimer interface [polypeptide binding]; other site 424182007789 conserved gate region; other site 424182007790 putative PBP binding loops; other site 424182007791 ABC-ATPase subunit interface; other site 424182007792 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 424182007793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182007794 dimer interface [polypeptide binding]; other site 424182007795 conserved gate region; other site 424182007796 putative PBP binding loops; other site 424182007797 ABC-ATPase subunit interface; other site 424182007798 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182007799 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182007800 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 424182007801 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182007802 DNA-binding site [nucleotide binding]; DNA binding site 424182007803 UTRA domain; Region: UTRA; pfam07702 424182007804 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 424182007805 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 424182007806 dimer interface [polypeptide binding]; other site 424182007807 active site 424182007808 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 424182007809 dimer interface [polypeptide binding]; other site 424182007810 active site 424182007811 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 424182007812 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 424182007813 active site 424182007814 dimer interface [polypeptide binding]; other site 424182007815 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 424182007816 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 424182007817 nucleotide binding site [chemical binding]; other site 424182007818 hypothetical protein; Provisional; Region: PRK06185 424182007819 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 424182007820 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 424182007821 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 424182007822 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 424182007823 active site 424182007824 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 424182007825 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 424182007826 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 424182007827 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 424182007828 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 424182007829 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 424182007830 substrate-cofactor binding pocket; other site 424182007831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182007832 catalytic residue [active] 424182007833 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 424182007834 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 424182007835 Surface antigen; Region: Bac_surface_Ag; pfam01103 424182007836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 424182007837 Family of unknown function (DUF490); Region: DUF490; pfam04357 424182007838 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 424182007839 putative CheA interaction surface; other site 424182007840 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 424182007841 PAS fold; Region: PAS_3; pfam08447 424182007842 putative active site [active] 424182007843 heme pocket [chemical binding]; other site 424182007844 PAS domain; Region: PAS_9; pfam13426 424182007845 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 424182007846 putative active site [active] 424182007847 heme pocket [chemical binding]; other site 424182007848 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 424182007849 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182007850 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182007851 dimer interface [polypeptide binding]; other site 424182007852 putative CheW interface [polypeptide binding]; other site 424182007853 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 424182007854 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 424182007855 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 424182007856 gamma subunit interface [polypeptide binding]; other site 424182007857 epsilon subunit interface [polypeptide binding]; other site 424182007858 LBP interface [polypeptide binding]; other site 424182007859 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 424182007860 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 424182007861 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 424182007862 alpha subunit interaction interface [polypeptide binding]; other site 424182007863 Walker A motif; other site 424182007864 ATP binding site [chemical binding]; other site 424182007865 Walker B motif; other site 424182007866 inhibitor binding site; inhibition site 424182007867 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 424182007868 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 424182007869 core domain interface [polypeptide binding]; other site 424182007870 delta subunit interface [polypeptide binding]; other site 424182007871 epsilon subunit interface [polypeptide binding]; other site 424182007872 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 424182007873 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 424182007874 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 424182007875 beta subunit interaction interface [polypeptide binding]; other site 424182007876 Walker A motif; other site 424182007877 ATP binding site [chemical binding]; other site 424182007878 Walker B motif; other site 424182007879 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 424182007880 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 424182007881 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 424182007882 primosome assembly protein PriA; Validated; Region: PRK05580 424182007883 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 424182007884 ATP binding site [chemical binding]; other site 424182007885 putative Mg++ binding site [ion binding]; other site 424182007886 helicase superfamily c-terminal domain; Region: HELICc; smart00490 424182007887 nucleotide binding region [chemical binding]; other site 424182007888 ATP-binding site [chemical binding]; other site 424182007889 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 424182007890 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 424182007891 active site 424182007892 DNA binding site [nucleotide binding] 424182007893 Int/Topo IB signature motif; other site 424182007894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 424182007895 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 424182007896 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 424182007897 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 424182007898 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 424182007899 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182007900 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 424182007901 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182007902 Predicted membrane protein [Function unknown]; Region: COG3686 424182007903 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 424182007904 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 424182007905 E3 interaction surface; other site 424182007906 lipoyl attachment site [posttranslational modification]; other site 424182007907 e3 binding domain; Region: E3_binding; pfam02817 424182007908 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 424182007909 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 424182007910 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 424182007911 TPP-binding site [chemical binding]; other site 424182007912 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 424182007913 dimer interface [polypeptide binding]; other site 424182007914 PYR/PP interface [polypeptide binding]; other site 424182007915 TPP binding site [chemical binding]; other site 424182007916 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 424182007917 CoA binding domain; Region: CoA_binding; smart00881 424182007918 CoA-ligase; Region: Ligase_CoA; pfam00549 424182007919 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 424182007920 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 424182007921 CoA-ligase; Region: Ligase_CoA; pfam00549 424182007922 malate dehydrogenase; Reviewed; Region: PRK06223 424182007923 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 424182007924 NAD(P) binding site [chemical binding]; other site 424182007925 dimer interface [polypeptide binding]; other site 424182007926 tetramer (dimer of dimers) interface [polypeptide binding]; other site 424182007927 substrate binding site [chemical binding]; other site 424182007928 Predicted ATPase [General function prediction only]; Region: COG1485 424182007929 Protease inhibitor Inh; Region: Inh; pfam02974 424182007930 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 424182007931 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 424182007932 catalytic loop [active] 424182007933 iron binding site [ion binding]; other site 424182007934 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 424182007935 L-aspartate oxidase; Provisional; Region: PRK06175 424182007936 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 424182007937 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 424182007938 putative SdhC subunit interface [polypeptide binding]; other site 424182007939 putative proximal heme binding site [chemical binding]; other site 424182007940 putative Iron-sulfur protein interface [polypeptide binding]; other site 424182007941 putative proximal quinone binding site; other site 424182007942 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 424182007943 Iron-sulfur protein interface; other site 424182007944 proximal quinone binding site [chemical binding]; other site 424182007945 SdhD (CybS) interface [polypeptide binding]; other site 424182007946 proximal heme binding site [chemical binding]; other site 424182007947 Predicted methyltransferase [General function prediction only]; Region: COG3897 424182007948 Uncharacterized conserved protein [Function unknown]; Region: COG2947 424182007949 YciI-like protein; Reviewed; Region: PRK12865 424182007950 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 424182007951 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 424182007952 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 424182007953 UGMP family protein; Validated; Region: PRK09604 424182007954 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 424182007955 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 424182007956 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 424182007957 domain interfaces; other site 424182007958 active site 424182007959 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 424182007960 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 424182007961 active site 424182007962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 424182007963 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 424182007964 HemY protein N-terminus; Region: HemY_N; pfam07219 424182007965 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 424182007966 putative metal binding site [ion binding]; other site 424182007967 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 424182007968 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 424182007969 catalytic triad [active] 424182007970 enterobactin exporter EntS; Provisional; Region: PRK10489 424182007971 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 424182007972 putative substrate translocation pore; other site 424182007973 YGGT family; Region: YGGT; pfam02325 424182007974 hypothetical protein; Validated; Region: PRK01310 424182007975 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 424182007976 dimer interface [polypeptide binding]; other site 424182007977 substrate binding site [chemical binding]; other site 424182007978 metal binding sites [ion binding]; metal-binding site 424182007979 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 424182007980 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182007981 Coenzyme A binding pocket [chemical binding]; other site 424182007982 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 424182007983 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 424182007984 G1 box; other site 424182007985 putative GEF interaction site [polypeptide binding]; other site 424182007986 GTP/Mg2+ binding site [chemical binding]; other site 424182007987 Switch I region; other site 424182007988 G2 box; other site 424182007989 G3 box; other site 424182007990 Switch II region; other site 424182007991 G4 box; other site 424182007992 G5 box; other site 424182007993 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 424182007994 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 424182007995 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 424182007996 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 424182007997 active site 424182007998 Zn binding site [ion binding]; other site 424182007999 Transcriptional regulators [Transcription]; Region: MarR; COG1846 424182008000 MarR family; Region: MarR_2; pfam12802 424182008001 MarR family; Region: MarR_2; cl17246 424182008002 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 424182008003 putative substrate translocation pore; other site 424182008004 argininosuccinate synthase; Provisional; Region: PRK13820 424182008005 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 424182008006 ANP binding site [chemical binding]; other site 424182008007 Substrate Binding Site II [chemical binding]; other site 424182008008 Substrate Binding Site I [chemical binding]; other site 424182008009 hypothetical protein; Provisional; Region: PRK06194 424182008010 classical (c) SDRs; Region: SDR_c; cd05233 424182008011 NAD(P) binding site [chemical binding]; other site 424182008012 active site 424182008013 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182008014 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 424182008015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182008016 Walker A/P-loop; other site 424182008017 ATP binding site [chemical binding]; other site 424182008018 Q-loop/lid; other site 424182008019 ABC transporter signature motif; other site 424182008020 Walker B; other site 424182008021 D-loop; other site 424182008022 H-loop/switch region; other site 424182008023 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 424182008024 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182008025 TM-ABC transporter signature motif; other site 424182008026 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 424182008027 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182008028 zinc binding site [ion binding]; other site 424182008029 putative ligand binding site [chemical binding]; other site 424182008030 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 424182008031 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 424182008032 FeS/SAM binding site; other site 424182008033 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 424182008034 Uncharacterized conserved protein [Function unknown]; Region: COG3339 424182008035 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 424182008036 aromatic arch; other site 424182008037 DCoH dimer interaction site [polypeptide binding]; other site 424182008038 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 424182008039 DCoH tetramer interaction site [polypeptide binding]; other site 424182008040 substrate binding site [chemical binding]; other site 424182008041 Low molecular weight phosphatase family; Region: LMWPc; cd00115 424182008042 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 424182008043 active site 424182008044 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 424182008045 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 424182008046 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 424182008047 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 424182008048 active site 424182008049 catalytic triad [active] 424182008050 oxyanion hole [active] 424182008051 switch loop; other site 424182008052 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 424182008053 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 424182008054 Walker A/P-loop; other site 424182008055 ATP binding site [chemical binding]; other site 424182008056 Q-loop/lid; other site 424182008057 ABC transporter signature motif; other site 424182008058 Walker B; other site 424182008059 D-loop; other site 424182008060 H-loop/switch region; other site 424182008061 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 424182008062 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 424182008063 FtsX-like permease family; Region: FtsX; pfam02687 424182008064 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 424182008065 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 424182008066 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 424182008067 Uncharacterized secreted protein [Function unknown]; Region: COG5429 424182008068 aconitate hydratase; Validated; Region: PRK09277 424182008069 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 424182008070 substrate binding site [chemical binding]; other site 424182008071 ligand binding site [chemical binding]; other site 424182008072 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 424182008073 substrate binding site [chemical binding]; other site 424182008074 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 424182008075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182008076 Walker A/P-loop; other site 424182008077 ATP binding site [chemical binding]; other site 424182008078 Q-loop/lid; other site 424182008079 ABC transporter signature motif; other site 424182008080 Walker B; other site 424182008081 D-loop; other site 424182008082 H-loop/switch region; other site 424182008083 heme exporter protein CcmB; Region: ccmB; TIGR01190 424182008084 heme exporter protein CcmC; Region: ccmC; TIGR01191 424182008085 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 424182008086 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 424182008087 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 424182008088 catalytic residues [active] 424182008089 central insert; other site 424182008090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182008091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182008092 metal binding site [ion binding]; metal-binding site 424182008093 active site 424182008094 I-site; other site 424182008095 hypothetical protein; Provisional; Region: PRK00944 424182008096 intracellular septation protein A; Reviewed; Region: PRK00259 424182008097 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 424182008098 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 424182008099 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 424182008100 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 424182008101 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 424182008102 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 424182008103 FeS/SAM binding site; other site 424182008104 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 424182008105 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 424182008106 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 424182008107 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 424182008108 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 424182008109 signal recognition particle protein; Provisional; Region: PRK10867 424182008110 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 424182008111 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 424182008112 P loop; other site 424182008113 GTP binding site [chemical binding]; other site 424182008114 Signal peptide binding domain; Region: SRP_SPB; pfam02978 424182008115 chorismate mutase; Provisional; Region: PRK09239 424182008116 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 424182008117 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 424182008118 RimM N-terminal domain; Region: RimM; pfam01782 424182008119 PRC-barrel domain; Region: PRC; pfam05239 424182008120 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 424182008121 hypothetical protein; Provisional; Region: PRK10621 424182008122 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 424182008123 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 424182008124 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182008125 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 424182008126 substrate binding pocket [chemical binding]; other site 424182008127 membrane-bound complex binding site; other site 424182008128 hinge residues; other site 424182008129 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182008130 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182008131 dimer interface [polypeptide binding]; other site 424182008132 conserved gate region; other site 424182008133 putative PBP binding loops; other site 424182008134 ABC-ATPase subunit interface; other site 424182008135 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 424182008136 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 424182008137 putative substrate translocation pore; other site 424182008138 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 424182008139 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 424182008140 substrate binding site [chemical binding]; other site 424182008141 ligand binding site [chemical binding]; other site 424182008142 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 424182008143 Peptidase family M48; Region: Peptidase_M48; pfam01435 424182008144 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 424182008145 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 424182008146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182008147 Walker A/P-loop; other site 424182008148 ATP binding site [chemical binding]; other site 424182008149 Q-loop/lid; other site 424182008150 ABC transporter signature motif; other site 424182008151 Walker B; other site 424182008152 D-loop; other site 424182008153 H-loop/switch region; other site 424182008154 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 424182008155 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182008156 dimer interface [polypeptide binding]; other site 424182008157 conserved gate region; other site 424182008158 ABC-ATPase subunit interface; other site 424182008159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182008160 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 424182008161 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 424182008162 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 424182008163 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182008164 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 424182008165 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182008166 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182008167 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 424182008168 Thiamine pyrophosphokinase; Region: TPK; cd07995 424182008169 active site 424182008170 dimerization interface [polypeptide binding]; other site 424182008171 thiamine binding site [chemical binding]; other site 424182008172 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 424182008173 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 424182008174 proposed active site lysine [active] 424182008175 conserved cys residue [active] 424182008176 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 424182008177 active site 424182008178 catalytic residues [active] 424182008179 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 424182008180 Transglycosylase; Region: Transgly; cl17702 424182008181 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 424182008182 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 424182008183 substrate binding pocket [chemical binding]; other site 424182008184 chain length determination region; other site 424182008185 substrate-Mg2+ binding site; other site 424182008186 catalytic residues [active] 424182008187 aspartate-rich region 1; other site 424182008188 active site lid residues [active] 424182008189 aspartate-rich region 2; other site 424182008190 putative outer membrane lipoprotein; Provisional; Region: PRK10510 424182008191 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 424182008192 ligand binding site [chemical binding]; other site 424182008193 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 424182008194 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 424182008195 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 424182008196 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 424182008197 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182008198 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 424182008199 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 424182008200 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 424182008201 pyruvate carboxylase; Reviewed; Region: PRK12999 424182008202 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 424182008203 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 424182008204 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 424182008205 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 424182008206 active site 424182008207 catalytic residues [active] 424182008208 metal binding site [ion binding]; metal-binding site 424182008209 homodimer binding site [polypeptide binding]; other site 424182008210 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 424182008211 carboxyltransferase (CT) interaction site; other site 424182008212 biotinylation site [posttranslational modification]; other site 424182008213 Autoinducer binding domain; Region: Autoind_bind; pfam03472 424182008214 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 424182008215 DNA binding residues [nucleotide binding] 424182008216 dimerization interface [polypeptide binding]; other site 424182008217 glucan exporter ATP-binding protein; Region: chvA; TIGR01192 424182008218 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182008219 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 424182008220 Walker A/P-loop; other site 424182008221 ATP binding site [chemical binding]; other site 424182008222 Q-loop/lid; other site 424182008223 ABC transporter signature motif; other site 424182008224 Walker B; other site 424182008225 D-loop; other site 424182008226 H-loop/switch region; other site 424182008227 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 424182008228 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 424182008229 Putative glucoamylase; Region: Glycoamylase; pfam10091 424182008230 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 424182008231 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 424182008232 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 424182008233 Protein of unknown function, DUF608; Region: DUF608; pfam04685 424182008234 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182008235 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 424182008236 metal binding site [ion binding]; metal-binding site 424182008237 putative dimer interface [polypeptide binding]; other site 424182008238 Predicted dehydrogenase [General function prediction only]; Region: COG0579 424182008239 hydroxyglutarate oxidase; Provisional; Region: PRK11728 424182008240 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 424182008241 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 424182008242 tetramer interface [polypeptide binding]; other site 424182008243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182008244 catalytic residue [active] 424182008245 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 424182008246 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 424182008247 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 424182008248 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182008249 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 424182008250 putative NAD(P) binding site [chemical binding]; other site 424182008251 active site 424182008252 putative substrate binding site [chemical binding]; other site 424182008253 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 424182008254 FAD binding domain; Region: FAD_binding_4; pfam01565 424182008255 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182008256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182008257 DNA-binding site [nucleotide binding]; DNA binding site 424182008258 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182008259 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 424182008260 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 424182008261 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 424182008262 DctM-like transporters; Region: DctM; pfam06808 424182008263 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 424182008264 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 424182008265 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 424182008266 acetyl-CoA synthetase; Provisional; Region: PRK00174 424182008267 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 424182008268 active site 424182008269 CoA binding site [chemical binding]; other site 424182008270 acyl-activating enzyme (AAE) consensus motif; other site 424182008271 AMP binding site [chemical binding]; other site 424182008272 acetate binding site [chemical binding]; other site 424182008273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 424182008274 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 424182008275 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 424182008276 catalytic residue [active] 424182008277 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 424182008278 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 424182008279 HIGH motif; other site 424182008280 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 424182008281 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 424182008282 active site 424182008283 KMSKS motif; other site 424182008284 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 424182008285 tRNA binding surface [nucleotide binding]; other site 424182008286 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 424182008287 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 424182008288 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 424182008289 Ferredoxin [Energy production and conversion]; Region: COG1146 424182008290 4Fe-4S binding domain; Region: Fer4; pfam00037 424182008291 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 424182008292 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 424182008293 RNA binding surface [nucleotide binding]; other site 424182008294 DEAD/DEAH box helicase; Region: DEAD; pfam00270 424182008295 ATP binding site [chemical binding]; other site 424182008296 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 424182008297 putative Mg++ binding site [ion binding]; other site 424182008298 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 424182008299 nucleotide binding region [chemical binding]; other site 424182008300 ATP-binding site [chemical binding]; other site 424182008301 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 424182008302 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 424182008303 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 424182008304 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 424182008305 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 424182008306 active site 424182008307 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 424182008308 catalytic triad [active] 424182008309 dimer interface [polypeptide binding]; other site 424182008310 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 424182008311 Nitrogen regulatory protein P-II; Region: P-II; smart00938 424182008312 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 424182008313 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 424182008314 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 424182008315 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 424182008316 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 424182008317 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 424182008318 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 424182008319 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 424182008320 putative catalytic site [active] 424182008321 putative phosphate binding site [ion binding]; other site 424182008322 active site 424182008323 metal binding site A [ion binding]; metal-binding site 424182008324 DNA binding site [nucleotide binding] 424182008325 putative AP binding site [nucleotide binding]; other site 424182008326 putative metal binding site B [ion binding]; other site 424182008327 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 424182008328 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 424182008329 ligand binding site [chemical binding]; other site 424182008330 flexible hinge region; other site 424182008331 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182008332 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 424182008333 active site 424182008334 phosphorylation site [posttranslational modification] 424182008335 intermolecular recognition site; other site 424182008336 dimerization interface [polypeptide binding]; other site 424182008337 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 424182008338 DNA binding site [nucleotide binding] 424182008339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 424182008340 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 424182008341 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 424182008342 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 424182008343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 424182008344 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 424182008345 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 424182008346 putative acyltransferase; Provisional; Region: PRK05790 424182008347 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 424182008348 dimer interface [polypeptide binding]; other site 424182008349 active site 424182008350 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 424182008351 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 424182008352 NAD(P) binding site [chemical binding]; other site 424182008353 homotetramer interface [polypeptide binding]; other site 424182008354 homodimer interface [polypeptide binding]; other site 424182008355 active site 424182008356 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 424182008357 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 424182008358 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 424182008359 heme binding site [chemical binding]; other site 424182008360 ferroxidase pore; other site 424182008361 ferroxidase diiron center [ion binding]; other site 424182008362 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 424182008363 putative active site [active] 424182008364 Ap4A binding site [chemical binding]; other site 424182008365 nudix motif; other site 424182008366 putative metal binding site [ion binding]; other site 424182008367 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 424182008368 NodB motif; other site 424182008369 putative active site [active] 424182008370 putative catalytic site [active] 424182008371 Zn binding site [ion binding]; other site 424182008372 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 424182008373 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 424182008374 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 424182008375 protein binding site [polypeptide binding]; other site 424182008376 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 424182008377 Catalytic dyad [active] 424182008378 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 424182008379 Peptidase family M23; Region: Peptidase_M23; pfam01551 424182008380 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 424182008381 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 424182008382 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 424182008383 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 424182008384 active site 424182008385 (T/H)XGH motif; other site 424182008386 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 424182008387 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 424182008388 putative catalytic cysteine [active] 424182008389 gamma-glutamyl kinase; Provisional; Region: PRK05429 424182008390 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 424182008391 nucleotide binding site [chemical binding]; other site 424182008392 homotetrameric interface [polypeptide binding]; other site 424182008393 putative phosphate binding site [ion binding]; other site 424182008394 putative allosteric binding site; other site 424182008395 PUA domain; Region: PUA; pfam01472 424182008396 GTPase CgtA; Reviewed; Region: obgE; PRK12299 424182008397 GTP1/OBG; Region: GTP1_OBG; pfam01018 424182008398 Obg GTPase; Region: Obg; cd01898 424182008399 G1 box; other site 424182008400 GTP/Mg2+ binding site [chemical binding]; other site 424182008401 Switch I region; other site 424182008402 G2 box; other site 424182008403 G3 box; other site 424182008404 Switch II region; other site 424182008405 G4 box; other site 424182008406 G5 box; other site 424182008407 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 424182008408 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 424182008409 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 424182008410 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 424182008411 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 424182008412 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 424182008413 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 424182008414 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 424182008415 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 424182008416 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 424182008417 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 424182008418 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 424182008419 substrate binding site [chemical binding]; other site 424182008420 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 424182008421 tartrate dehydrogenase; Region: TTC; TIGR02089 424182008422 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 424182008423 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 424182008424 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 424182008425 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 424182008426 conserved cys residue [active] 424182008427 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 424182008428 active site 424182008429 SAM binding site [chemical binding]; other site 424182008430 homodimer interface [polypeptide binding]; other site 424182008431 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 424182008432 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 424182008433 active site 424182008434 SAM binding site [chemical binding]; other site 424182008435 homodimer interface [polypeptide binding]; other site 424182008436 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 424182008437 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 424182008438 active site 424182008439 putative homodimer interface [polypeptide binding]; other site 424182008440 SAM binding site [chemical binding]; other site 424182008441 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 424182008442 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 424182008443 S-adenosylmethionine binding site [chemical binding]; other site 424182008444 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 424182008445 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 424182008446 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 424182008447 active site 424182008448 SAM binding site [chemical binding]; other site 424182008449 homodimer interface [polypeptide binding]; other site 424182008450 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 424182008451 active site 424182008452 SAM binding site [chemical binding]; other site 424182008453 homodimer interface [polypeptide binding]; other site 424182008454 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 424182008455 Precorrin-8X methylmutase; Region: CbiC; pfam02570 424182008456 precorrin-3B synthase; Region: CobG; TIGR02435 424182008457 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 424182008458 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 424182008459 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 424182008460 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 424182008461 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 424182008462 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 424182008463 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 424182008464 dimer interface [polypeptide binding]; other site 424182008465 [2Fe-2S] cluster binding site [ion binding]; other site 424182008466 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 424182008467 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 424182008468 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 424182008469 homodimer interface [polypeptide binding]; other site 424182008470 Walker A motif; other site 424182008471 ATP binding site [chemical binding]; other site 424182008472 hydroxycobalamin binding site [chemical binding]; other site 424182008473 Walker B motif; other site 424182008474 cobyric acid synthase; Provisional; Region: PRK00784 424182008475 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 424182008476 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 424182008477 catalytic triad [active] 424182008478 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 424182008479 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 424182008480 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 424182008481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182008482 homodimer interface [polypeptide binding]; other site 424182008483 catalytic residue [active] 424182008484 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182008485 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 424182008486 putative active site pocket [active] 424182008487 metal binding site [ion binding]; metal-binding site 424182008488 Uncharacterized conserved protein [Function unknown]; Region: COG3254 424182008489 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 424182008490 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 424182008491 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 424182008492 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 424182008493 putative NAD(P) binding site [chemical binding]; other site 424182008494 catalytic Zn binding site [ion binding]; other site 424182008495 structural Zn binding site [ion binding]; other site 424182008496 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 424182008497 Amidohydrolase; Region: Amidohydro_2; pfam04909 424182008498 active site 424182008499 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 424182008500 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182008501 active site 424182008502 catalytic tetrad [active] 424182008503 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 424182008504 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182008505 putative ligand binding site [chemical binding]; other site 424182008506 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182008507 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 424182008508 TM-ABC transporter signature motif; other site 424182008509 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182008510 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182008511 Walker A/P-loop; other site 424182008512 ATP binding site [chemical binding]; other site 424182008513 Q-loop/lid; other site 424182008514 ABC transporter signature motif; other site 424182008515 Walker B; other site 424182008516 D-loop; other site 424182008517 H-loop/switch region; other site 424182008518 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182008519 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182008520 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182008521 DNA-binding site [nucleotide binding]; DNA binding site 424182008522 FCD domain; Region: FCD; pfam07729 424182008523 galactarate dehydratase; Region: galactar-dH20; TIGR03248 424182008524 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 424182008525 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 424182008526 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 424182008527 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 424182008528 purine monophosphate binding site [chemical binding]; other site 424182008529 dimer interface [polypeptide binding]; other site 424182008530 putative catalytic residues [active] 424182008531 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 424182008532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 424182008533 NusB family; Region: NusB; pfam01029 424182008534 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 424182008535 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 424182008536 S-adenosylmethionine binding site [chemical binding]; other site 424182008537 heat shock protein HtpX; Provisional; Region: PRK01345 424182008538 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 424182008539 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 424182008540 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 424182008541 ParB-like nuclease domain; Region: ParBc; pfam02195 424182008542 KorB domain; Region: KorB; pfam08535 424182008543 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 424182008544 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 424182008545 P-loop; other site 424182008546 Magnesium ion binding site [ion binding]; other site 424182008547 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 424182008548 Magnesium ion binding site [ion binding]; other site 424182008549 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 424182008550 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 424182008551 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 424182008552 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 424182008553 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 424182008554 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 424182008555 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 424182008556 trmE is a tRNA modification GTPase; Region: trmE; cd04164 424182008557 G1 box; other site 424182008558 GTP/Mg2+ binding site [chemical binding]; other site 424182008559 Switch I region; other site 424182008560 G2 box; other site 424182008561 Switch II region; other site 424182008562 G3 box; other site 424182008563 G4 box; other site 424182008564 G5 box; other site 424182008565 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 424182008566 transcription termination factor Rho; Provisional; Region: rho; PRK09376 424182008567 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 424182008568 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 424182008569 RNA binding site [nucleotide binding]; other site 424182008570 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 424182008571 multimer interface [polypeptide binding]; other site 424182008572 Walker A motif; other site 424182008573 ATP binding site [chemical binding]; other site 424182008574 Walker B motif; other site 424182008575 Predicted membrane protein [Function unknown]; Region: COG1981 424182008576 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 424182008577 substrate binding site [chemical binding]; other site 424182008578 active site 424182008579 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 424182008580 MerR family regulatory protein; Region: MerR; pfam00376 424182008581 DNA binding residues [nucleotide binding] 424182008582 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 424182008583 P-loop; other site 424182008584 Magnesium ion binding site [ion binding]; other site 424182008585 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 424182008586 P-loop; other site 424182008587 Magnesium ion binding site [ion binding]; other site 424182008588 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 424182008589 ParB-like nuclease domain; Region: ParBc; pfam02195 424182008590 replication initiation protein RepC; Provisional; Region: PRK13824 424182008591 Replication protein C N-terminal domain; Region: RP-C; pfam03428 424182008592 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 424182008593 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 424182008594 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 424182008595 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 424182008596 ArsC family; Region: ArsC; pfam03960 424182008597 catalytic residues [active] 424182008598 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 424182008599 arsenical-resistance protein; Region: acr3; TIGR00832 424182008600 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182008601 Coenzyme A binding pocket [chemical binding]; other site 424182008602 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 424182008603 Low molecular weight phosphatase family; Region: LMWPc; cd00115 424182008604 active site 424182008605 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 424182008606 dimerization interface [polypeptide binding]; other site 424182008607 putative DNA binding site [nucleotide binding]; other site 424182008608 putative Zn2+ binding site [ion binding]; other site 424182008609 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 424182008610 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 424182008611 Int/Topo IB signature motif; other site 424182008612 DNA binding site [nucleotide binding] 424182008613 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 424182008614 oligomeric interface; other site 424182008615 homodimer interface [polypeptide binding]; other site 424182008616 putative active site [active] 424182008617 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 424182008618 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 424182008619 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 424182008620 oligomerization interface [polypeptide binding]; other site 424182008621 active site 424182008622 metal binding site [ion binding]; metal-binding site 424182008623 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 424182008624 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 424182008625 DNA binding site [nucleotide binding] 424182008626 active site 424182008627 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 424182008628 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 424182008629 AAA domain; Region: AAA_14; pfam13173 424182008630 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 424182008631 DNA binding site [nucleotide binding] 424182008632 dimer interface [polypeptide binding]; other site 424182008633 active site 424182008634 Int/Topo IB signature motif; other site 424182008635 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 424182008636 HTH DNA binding domain; Region: HTH_13; pfam11972 424182008637 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 424182008638 Caspase domain; Region: Peptidase_C14; pfam00656 424182008639 ski2-like helicase; Provisional; Region: PRK02362 424182008640 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 424182008641 ATP binding site [chemical binding]; other site 424182008642 putative Mg++ binding site [ion binding]; other site 424182008643 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 424182008644 nucleotide binding region [chemical binding]; other site 424182008645 ATP-binding site [chemical binding]; other site 424182008646 HemN C-terminal domain; Region: HemN_C; pfam06969 424182008647 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 424182008648 Domain of unknown function (DUF955); Region: DUF955; pfam06114 424182008649 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 424182008650 Part of AAA domain; Region: AAA_19; pfam13245 424182008651 Family description; Region: UvrD_C_2; pfam13538 424182008652 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 424182008653 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 424182008654 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 424182008655 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 424182008656 hypothetical protein; Provisional; Region: PRK06153 424182008657 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 424182008658 ATP binding site [chemical binding]; other site 424182008659 substrate interface [chemical binding]; other site 424182008660 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182008661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182008662 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 424182008663 dimerization interface [polypeptide binding]; other site 424182008664 oxidoreductase; Provisional; Region: PRK06196 424182008665 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 424182008666 putative NAD(P) binding site [chemical binding]; other site 424182008667 active site 424182008668 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 424182008669 Uncharacterized conserved protein [Function unknown]; Region: COG2128 424182008670 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 424182008671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182008672 NADH(P)-binding; Region: NAD_binding_10; pfam13460 424182008673 NAD(P) binding site [chemical binding]; other site 424182008674 active site 424182008675 Rrf2 family protein; Region: rrf2_super; TIGR00738 424182008676 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 424182008677 putative Zn2+ binding site [ion binding]; other site 424182008678 putative DNA binding site [nucleotide binding]; other site 424182008679 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 424182008680 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 424182008681 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 424182008682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182008683 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 424182008684 DNA binding site [nucleotide binding] 424182008685 active site 424182008686 Uncharacterized conserved protein [Function unknown]; Region: COG2135 424182008687 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 424182008688 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 424182008689 active site 424182008690 DNA binding site [nucleotide binding] 424182008691 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 424182008692 DNA binding site [nucleotide binding] 424182008693 Uncharacterized conserved protein [Function unknown]; Region: COG4544 424182008694 DNA Polymerase Y-family; Region: PolY_like; cd03468 424182008695 active site 424182008696 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 424182008697 DNA binding site [nucleotide binding] 424182008698 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 424182008699 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 424182008700 putative active site [active] 424182008701 putative PHP Thumb interface [polypeptide binding]; other site 424182008702 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 424182008703 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 424182008704 generic binding surface I; other site 424182008705 generic binding surface II; other site 424182008706 EamA-like transporter family; Region: EamA; pfam00892 424182008707 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 424182008708 EamA-like transporter family; Region: EamA; pfam00892 424182008709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182008710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182008711 LysR substrate binding domain; Region: LysR_substrate; pfam03466 424182008712 dimerization interface [polypeptide binding]; other site 424182008713 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 424182008714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182008715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182008716 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 424182008717 substrate binding pocket [chemical binding]; other site 424182008718 dimerization interface [polypeptide binding]; other site 424182008719 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182008720 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182008721 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 424182008722 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 424182008723 NADP binding site [chemical binding]; other site 424182008724 substrate binding site [chemical binding]; other site 424182008725 active site 424182008726 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182008727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182008728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182008729 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 424182008730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182008731 NAD(P) binding site [chemical binding]; other site 424182008732 active site 424182008733 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 424182008734 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 424182008735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182008736 NAD(P) binding site [chemical binding]; other site 424182008737 active site 424182008738 Transcriptional regulator; Region: Rrf2; pfam02082 424182008739 Rrf2 family protein; Region: rrf2_super; TIGR00738 424182008740 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 424182008741 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 424182008742 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182008743 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 424182008744 N-terminal domain interface [polypeptide binding]; other site 424182008745 dimer interface [polypeptide binding]; other site 424182008746 substrate binding pocket (H-site) [chemical binding]; other site 424182008747 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182008748 Serine hydrolase; Region: Ser_hydrolase; cl17834 424182008749 RNA polymerase sigma factor; Provisional; Region: PRK12512 424182008750 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182008751 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 424182008752 DNA binding residues [nucleotide binding] 424182008753 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 424182008754 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 424182008755 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182008756 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 424182008757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182008758 NAD(P) binding site [chemical binding]; other site 424182008759 active site 424182008760 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182008761 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182008762 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 424182008763 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 424182008764 putative substrate translocation pore; other site 424182008765 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 424182008766 classical (c) SDRs; Region: SDR_c; cd05233 424182008767 NAD(P) binding site [chemical binding]; other site 424182008768 active site 424182008769 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 424182008770 aspartate racemase; Region: asp_race; TIGR00035 424182008771 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 424182008772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182008773 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182008774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182008775 short chain dehydrogenase; Provisional; Region: PRK06180 424182008776 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 424182008777 NADP binding site [chemical binding]; other site 424182008778 active site 424182008779 steroid binding site; other site 424182008780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182008781 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182008782 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 424182008783 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 424182008784 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 424182008785 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 424182008786 Moco binding site; other site 424182008787 metal coordination site [ion binding]; other site 424182008788 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 424182008789 Chorismate mutase type II; Region: CM_2; cl00693 424182008790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182008791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182008792 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 424182008793 dimerization interface [polypeptide binding]; other site 424182008794 short chain dehydrogenase; Provisional; Region: PRK06180 424182008795 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 424182008796 NADP binding site [chemical binding]; other site 424182008797 active site 424182008798 steroid binding site; other site 424182008799 Epoxide hydrolase N terminus; Region: EHN; pfam06441 424182008800 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182008801 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182008802 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182008803 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182008804 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 424182008805 active site 424182008806 metal binding site [ion binding]; metal-binding site 424182008807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 424182008808 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182008809 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182008810 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182008811 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 424182008812 homotrimer interaction site [polypeptide binding]; other site 424182008813 putative active site [active] 424182008814 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 424182008815 DNA-binding site [nucleotide binding]; DNA binding site 424182008816 RNA-binding motif; other site 424182008817 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 424182008818 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 424182008819 phosphate binding site [ion binding]; other site 424182008820 Transposase; Region: DEDD_Tnp_IS110; pfam01548 424182008821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182008822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182008823 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 424182008824 putative effector binding pocket; other site 424182008825 putative dimerization interface [polypeptide binding]; other site 424182008826 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 424182008827 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 424182008828 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 424182008829 short chain dehydrogenase; Provisional; Region: PRK06172 424182008830 classical (c) SDRs; Region: SDR_c; cd05233 424182008831 NAD(P) binding site [chemical binding]; other site 424182008832 active site 424182008833 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 424182008834 AAA domain; Region: AAA_14; pfam13173 424182008835 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182008836 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182008837 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182008838 dimer interface [polypeptide binding]; other site 424182008839 conserved gate region; other site 424182008840 putative PBP binding loops; other site 424182008841 ABC-ATPase subunit interface; other site 424182008842 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182008843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182008844 dimer interface [polypeptide binding]; other site 424182008845 conserved gate region; other site 424182008846 putative PBP binding loops; other site 424182008847 ABC-ATPase subunit interface; other site 424182008848 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 424182008849 Glycerophosphodiester phosphodiesterase domain of putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_pAtGDE_like; cd08565 424182008850 active site 424182008851 catalytic site [active] 424182008852 metal binding site [ion binding]; metal-binding site 424182008853 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182008854 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182008855 Walker A/P-loop; other site 424182008856 ATP binding site [chemical binding]; other site 424182008857 Q-loop/lid; other site 424182008858 ABC transporter signature motif; other site 424182008859 Walker B; other site 424182008860 D-loop; other site 424182008861 H-loop/switch region; other site 424182008862 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 424182008863 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 424182008864 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 424182008865 putative active site [active] 424182008866 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 424182008867 dimerization interface [polypeptide binding]; other site 424182008868 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182008869 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182008870 dimer interface [polypeptide binding]; other site 424182008871 putative CheW interface [polypeptide binding]; other site 424182008872 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 424182008873 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 424182008874 drug efflux system protein MdtG; Provisional; Region: PRK09874 424182008875 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 424182008876 putative substrate translocation pore; other site 424182008877 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 424182008878 substrate binding site [chemical binding]; other site 424182008879 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182008880 ParB-like nuclease domain; Region: ParBc; pfam02195 424182008881 Toprim domain; Region: Toprim_3; pfam13362 424182008882 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 424182008883 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 424182008884 oligomeric interface; other site 424182008885 putative active site [active] 424182008886 homodimer interface [polypeptide binding]; other site 424182008887 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 424182008888 Uncharacterized conserved protein [Function unknown]; Region: COG5654 424182008889 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 424182008890 Uncharacterized conserved protein [Function unknown]; Region: COG5489 424182008891 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 424182008892 IHF dimer interface [polypeptide binding]; other site 424182008893 IHF - DNA interface [nucleotide binding]; other site 424182008894 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 424182008895 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 424182008896 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 424182008897 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182008898 catalytic residue [active] 424182008899 TrbC/VIRB2 family; Region: TrbC; pfam04956 424182008900 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 424182008901 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 424182008902 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 424182008903 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 424182008904 ATP binding site [chemical binding]; other site 424182008905 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 424182008906 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 424182008907 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182008908 catalytic residue [active] 424182008909 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 424182008910 VirB8 protein; Region: VirB8; pfam04335 424182008911 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 424182008912 VirB7 interaction site; other site 424182008913 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 424182008914 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 424182008915 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 424182008916 Walker A motif; other site 424182008917 hexamer interface [polypeptide binding]; other site 424182008918 ATP binding site [chemical binding]; other site 424182008919 Walker B motif; other site 424182008920 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 424182008921 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 424182008922 Walker A motif; other site 424182008923 ATP binding site [chemical binding]; other site 424182008924 Walker B motif; other site 424182008925 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 424182008926 non-specific DNA binding site [nucleotide binding]; other site 424182008927 salt bridge; other site 424182008928 sequence-specific DNA binding site [nucleotide binding]; other site 424182008929 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 424182008930 Staphylococcal nuclease homologues; Region: SNc; smart00318 424182008931 Catalytic site; other site 424182008932 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 424182008933 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 424182008934 P-loop; other site 424182008935 Magnesium ion binding site [ion binding]; other site 424182008936 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 424182008937 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 424182008938 active site 424182008939 motif I; other site 424182008940 motif II; other site 424182008941 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 424182008942 DNA binding residues [nucleotide binding] 424182008943 dimerization interface [polypeptide binding]; other site 424182008944 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 424182008945 non-specific DNA binding site [nucleotide binding]; other site 424182008946 salt bridge; other site 424182008947 sequence-specific DNA binding site [nucleotide binding]; other site 424182008948 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 424182008949 non-specific DNA binding site [nucleotide binding]; other site 424182008950 salt bridge; other site 424182008951 sequence-specific DNA binding site [nucleotide binding]; other site 424182008952 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 424182008953 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182008954 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182008955 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 424182008956 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182008957 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 424182008958 active site 424182008959 threonine synthase; Validated; Region: PRK07591 424182008960 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 424182008961 homodimer interface [polypeptide binding]; other site 424182008962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182008963 catalytic residue [active] 424182008964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 424182008965 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 424182008966 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 424182008967 Helix-turn-helix; Region: HTH_3; pfam01381 424182008968 non-specific DNA binding site [nucleotide binding]; other site 424182008969 salt bridge; other site 424182008970 sequence-specific DNA binding site [nucleotide binding]; other site 424182008971 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 424182008972 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 424182008973 dimer interface [polypeptide binding]; other site 424182008974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182008975 catalytic residue [active] 424182008976 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 424182008977 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182008978 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 424182008979 active site 424182008980 phosphorylation site [posttranslational modification] 424182008981 intermolecular recognition site; other site 424182008982 dimerization interface [polypeptide binding]; other site 424182008983 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 424182008984 DNA binding residues [nucleotide binding] 424182008985 dimerization interface [polypeptide binding]; other site 424182008986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 424182008987 Histidine kinase; Region: HisKA_3; pfam07730 424182008988 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 424182008989 ATP binding site [chemical binding]; other site 424182008990 Mg2+ binding site [ion binding]; other site 424182008991 G-X-G motif; other site 424182008992 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 424182008993 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 424182008994 Sulfate transporter family; Region: Sulfate_transp; pfam00916 424182008995 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 424182008996 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182008997 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 424182008998 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 424182008999 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 424182009000 oligomerisation interface [polypeptide binding]; other site 424182009001 mobile loop; other site 424182009002 roof hairpin; other site 424182009003 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 424182009004 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 424182009005 ring oligomerisation interface [polypeptide binding]; other site 424182009006 ATP/Mg binding site [chemical binding]; other site 424182009007 stacking interactions; other site 424182009008 hinge regions; other site 424182009009 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 424182009010 Predicted membrane protein (DUF2335); Region: DUF2335; pfam10097 424182009011 Homeodomain-like domain; Region: HTH_23; cl17451 424182009012 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 424182009013 Helix-turn-helix domain; Region: HTH_38; pfam13936 424182009014 Integrase core domain; Region: rve; pfam00665 424182009015 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182009016 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 424182009017 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182009018 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182009019 dimer interface [polypeptide binding]; other site 424182009020 putative CheW interface [polypeptide binding]; other site 424182009021 acetyl-CoA synthetase; Provisional; Region: PRK00174 424182009022 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 424182009023 active site 424182009024 CoA binding site [chemical binding]; other site 424182009025 acyl-activating enzyme (AAE) consensus motif; other site 424182009026 AMP binding site [chemical binding]; other site 424182009027 acetate binding site [chemical binding]; other site 424182009028 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 424182009029 putative substrate translocation pore; other site 424182009030 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 424182009031 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 424182009032 PAS domain; Region: PAS_9; pfam13426 424182009033 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 424182009034 putative active site [active] 424182009035 heme pocket [chemical binding]; other site 424182009036 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 424182009037 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 424182009038 Walker A motif; other site 424182009039 ATP binding site [chemical binding]; other site 424182009040 Walker B motif; other site 424182009041 arginine finger; other site 424182009042 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 424182009043 methionine gamma-lyase; Provisional; Region: PRK07503 424182009044 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 424182009045 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182009046 catalytic residue [active] 424182009047 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 424182009048 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 424182009049 non-specific DNA binding site [nucleotide binding]; other site 424182009050 salt bridge; other site 424182009051 sequence-specific DNA binding site [nucleotide binding]; other site 424182009052 Cupin domain; Region: Cupin_2; pfam07883 424182009053 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 424182009054 B3/4 domain; Region: B3_4; pfam03483 424182009055 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 424182009056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182009057 Walker A/P-loop; other site 424182009058 ATP binding site [chemical binding]; other site 424182009059 Q-loop/lid; other site 424182009060 ABC transporter signature motif; other site 424182009061 Walker B; other site 424182009062 D-loop; other site 424182009063 H-loop/switch region; other site 424182009064 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182009065 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 424182009066 substrate binding pocket [chemical binding]; other site 424182009067 membrane-bound complex binding site; other site 424182009068 hinge residues; other site 424182009069 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182009070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009071 dimer interface [polypeptide binding]; other site 424182009072 conserved gate region; other site 424182009073 putative PBP binding loops; other site 424182009074 ABC-ATPase subunit interface; other site 424182009075 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182009076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009077 dimer interface [polypeptide binding]; other site 424182009078 conserved gate region; other site 424182009079 putative PBP binding loops; other site 424182009080 ABC-ATPase subunit interface; other site 424182009081 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 424182009082 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 424182009083 homodimer interface [polypeptide binding]; other site 424182009084 substrate-cofactor binding pocket; other site 424182009085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182009086 catalytic residue [active] 424182009087 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 424182009088 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 424182009089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182009090 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 424182009091 dimerization interface [polypeptide binding]; other site 424182009092 homoserine dehydrogenase; Provisional; Region: PRK06270 424182009093 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 424182009094 NAD(P) binding pocket [chemical binding]; other site 424182009095 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 424182009096 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182009097 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 424182009098 NAD(P) binding site [chemical binding]; other site 424182009099 catalytic residues [active] 424182009100 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 424182009101 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 424182009102 dimer interface [polypeptide binding]; other site 424182009103 active site 424182009104 catalytic residue [active] 424182009105 Aspartase; Region: Aspartase; cd01357 424182009106 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 424182009107 active sites [active] 424182009108 tetramer interface [polypeptide binding]; other site 424182009109 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 424182009110 active site 424182009111 substrate binding site [chemical binding]; other site 424182009112 ATP binding site [chemical binding]; other site 424182009113 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182009114 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 424182009115 AsnC family; Region: AsnC_trans_reg; pfam01037 424182009116 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182009117 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 424182009118 putative C-terminal domain interface [polypeptide binding]; other site 424182009119 putative GSH binding site (G-site) [chemical binding]; other site 424182009120 putative dimer interface [polypeptide binding]; other site 424182009121 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 424182009122 N-terminal domain interface [polypeptide binding]; other site 424182009123 L-lactate permease; Region: Lactate_perm; cl00701 424182009124 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 424182009125 inhibitor site; inhibition site 424182009126 dihydrodipicolinate synthase; Region: dapA; TIGR00674 424182009127 active site 424182009128 dimer interface [polypeptide binding]; other site 424182009129 catalytic residue [active] 424182009130 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 424182009131 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 424182009132 homodimer interface [polypeptide binding]; other site 424182009133 substrate-cofactor binding pocket; other site 424182009134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182009135 catalytic residue [active] 424182009136 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 424182009137 putative transposase OrfB; Reviewed; Region: PHA02517 424182009138 HTH-like domain; Region: HTH_21; pfam13276 424182009139 Integrase core domain; Region: rve; pfam00665 424182009140 Integrase core domain; Region: rve_2; pfam13333 424182009141 Growth-arrest specific micro-tubule binding; Region: GAS; pfam13851 424182009142 Alpha 1,6-fucosyltransferase similar to Bradyrhizobium NodZ; Region: NodZ_like; cd11548 424182009143 GDP-Fucose binding site [chemical binding]; other site 424182009144 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 424182009145 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 424182009146 NADP-binding site; other site 424182009147 homotetramer interface [polypeptide binding]; other site 424182009148 substrate binding site [chemical binding]; other site 424182009149 homodimer interface [polypeptide binding]; other site 424182009150 active site 424182009151 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 424182009152 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 424182009153 NADP binding site [chemical binding]; other site 424182009154 active site 424182009155 putative substrate binding site [chemical binding]; other site 424182009156 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 424182009157 Paired Box domain; Region: PAX; cd00131 424182009158 DNA binding site [nucleotide binding] 424182009159 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 424182009160 DDE superfamily endonuclease; Region: DDE_3; pfam13358 424182009161 Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 424182009162 Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 424182009163 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 424182009164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182009165 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 424182009166 putative substrate binding pocket [chemical binding]; other site 424182009167 putative dimerization interface [polypeptide binding]; other site 424182009168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182009169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182009170 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 424182009171 putative substrate binding pocket [chemical binding]; other site 424182009172 putative dimerization interface [polypeptide binding]; other site 424182009173 putative transposase OrfB; Reviewed; Region: PHA02517 424182009174 HTH-like domain; Region: HTH_21; pfam13276 424182009175 Integrase core domain; Region: rve; pfam00665 424182009176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182009177 Transposase; Region: HTH_Tnp_1; pfam01527 424182009178 Protein of unknown function, DUF269; Region: DUF269; cl03973 424182009179 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 424182009180 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 424182009181 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 424182009182 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 424182009183 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 424182009184 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 424182009185 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 424182009186 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 424182009187 MoFe protein beta/alpha subunit interactions; other site 424182009188 Beta subunit P cluster binding residues; other site 424182009189 MoFe protein beta subunit/Fe protein contacts; other site 424182009190 MoFe protein dimer/ dimer interactions; other site 424182009191 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 424182009192 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 424182009193 MoFe protein alpha/beta subunit interactions; other site 424182009194 Alpha subunit P cluster binding residues; other site 424182009195 FeMoco binding residues [chemical binding]; other site 424182009196 MoFe protein alpha subunit/Fe protein contacts; other site 424182009197 MoFe protein dimer/ dimer interactions; other site 424182009198 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 424182009199 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 424182009200 Nucleotide-binding sites [chemical binding]; other site 424182009201 Walker A motif; other site 424182009202 Switch I region of nucleotide binding site; other site 424182009203 Fe4S4 binding sites [ion binding]; other site 424182009204 Switch II region of nucleotide binding site; other site 424182009205 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 424182009206 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 424182009207 short chain dehydrogenase; Validated; Region: PRK06484 424182009208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182009209 NAD(P) binding site [chemical binding]; other site 424182009210 active site 424182009211 classical (c) SDRs; Region: SDR_c; cd05233 424182009212 NAD(P) binding site [chemical binding]; other site 424182009213 active site 424182009214 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 424182009215 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 424182009216 Cytochrome P450; Region: p450; cl12078 424182009217 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 424182009218 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 424182009219 NifQ; Region: NifQ; pfam04891 424182009220 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 424182009221 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 424182009222 catalytic triad [active] 424182009223 dimer interface [polypeptide binding]; other site 424182009224 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 424182009225 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 424182009226 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 424182009227 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182009228 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 424182009229 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 424182009230 Ligand binding site [chemical binding]; other site 424182009231 Electron transfer flavoprotein domain; Region: ETF; pfam01012 424182009232 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 424182009233 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 424182009234 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 424182009235 oxidoreductase; Provisional; Region: PRK10015 424182009236 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 424182009237 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 424182009238 Nif-specific regulatory protein; Region: nifA; TIGR01817 424182009239 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 424182009240 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 424182009241 Walker A motif; other site 424182009242 ATP binding site [chemical binding]; other site 424182009243 Walker B motif; other site 424182009244 arginine finger; other site 424182009245 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 424182009246 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 424182009247 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 424182009248 FeS/SAM binding site; other site 424182009249 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 424182009250 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 424182009251 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 424182009252 NifZ domain; Region: NifZ; pfam04319 424182009253 NifT/FixU protein; Region: NifT; pfam06988 424182009254 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 424182009255 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 424182009256 Predicted transcriptional regulator [Transcription]; Region: COG4957 424182009257 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 424182009258 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 424182009259 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 424182009260 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 424182009261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182009262 homodimer interface [polypeptide binding]; other site 424182009263 catalytic residue [active] 424182009264 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 424182009265 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 424182009266 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 424182009267 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 424182009268 catalytic residues [active] 424182009269 catalytic nucleophile [active] 424182009270 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 424182009271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 424182009272 Integrase core domain; Region: rve; pfam00665 424182009273 Transposase; Region: DEDD_Tnp_IS110; pfam01548 424182009274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 424182009275 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 424182009276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182009277 Transposase; Region: HTH_Tnp_1; pfam01527 424182009278 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 424182009279 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 424182009280 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 424182009281 ABC-2 type transporter; Region: ABC2_membrane; cl17235 424182009282 ATP-binding ABC transporter family nodulation protein NodI; Region: nodI; TIGR01288 424182009283 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 424182009284 Walker A/P-loop; other site 424182009285 ATP binding site [chemical binding]; other site 424182009286 Q-loop/lid; other site 424182009287 ABC transporter signature motif; other site 424182009288 Walker B; other site 424182009289 D-loop; other site 424182009290 H-loop/switch region; other site 424182009291 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 424182009292 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 424182009293 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 424182009294 S-adenosylmethionine binding site [chemical binding]; other site 424182009295 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 424182009296 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 424182009297 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 424182009298 DXD motif; other site 424182009299 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 424182009300 chitooligosaccharide deacetylase NodB; Region: nodulat_NodB; TIGR04243 424182009301 Nodulation protein A (NodA); Region: NodA; pfam02474 424182009302 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 424182009303 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 424182009304 dimer interface [polypeptide binding]; other site 424182009305 active site 424182009306 Transposase; Region: HTH_Tnp_1; pfam01527 424182009307 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 424182009308 HTH-like domain; Region: HTH_21; pfam13276 424182009309 Integrase core domain; Region: rve; pfam00665 424182009310 Integrase core domain; Region: rve_3; pfam13683 424182009311 short chain dehydrogenase; Provisional; Region: PRK07102 424182009312 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 424182009313 NAD(P) binding site [chemical binding]; other site 424182009314 active site 424182009315 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 424182009316 FAD binding domain; Region: FAD_binding_4; pfam01565 424182009317 GtrA-like protein; Region: GtrA; pfam04138 424182009318 hypothetical protein; Validated; Region: PRK08238 424182009319 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 424182009320 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 424182009321 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182009322 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182009323 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 424182009324 dimerization interface [polypeptide binding]; other site 424182009325 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 424182009326 inhibitor site; inhibition site 424182009327 active site 424182009328 dimer interface [polypeptide binding]; other site 424182009329 catalytic residue [active] 424182009330 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 424182009331 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 424182009332 homodimer interface [polypeptide binding]; other site 424182009333 substrate-cofactor binding pocket; other site 424182009334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182009335 catalytic residue [active] 424182009336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182009337 DNA-binding site [nucleotide binding]; DNA binding site 424182009338 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 424182009339 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 424182009340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182009341 homodimer interface [polypeptide binding]; other site 424182009342 catalytic residue [active] 424182009343 MOSC domain; Region: MOSC; pfam03473 424182009344 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 424182009345 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 424182009346 FMN-binding pocket [chemical binding]; other site 424182009347 flavin binding motif; other site 424182009348 phosphate binding motif [ion binding]; other site 424182009349 beta-alpha-beta structure motif; other site 424182009350 NAD binding pocket [chemical binding]; other site 424182009351 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 424182009352 catalytic loop [active] 424182009353 iron binding site [ion binding]; other site 424182009354 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 424182009355 TPP-binding site [chemical binding]; other site 424182009356 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 424182009357 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 424182009358 PYR/PP interface [polypeptide binding]; other site 424182009359 dimer interface [polypeptide binding]; other site 424182009360 TPP binding site [chemical binding]; other site 424182009361 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 424182009362 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 424182009363 Walker A/P-loop; other site 424182009364 ATP binding site [chemical binding]; other site 424182009365 Q-loop/lid; other site 424182009366 ABC transporter signature motif; other site 424182009367 Walker B; other site 424182009368 D-loop; other site 424182009369 H-loop/switch region; other site 424182009370 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182009371 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 424182009372 Walker A/P-loop; other site 424182009373 ATP binding site [chemical binding]; other site 424182009374 Q-loop/lid; other site 424182009375 ABC transporter signature motif; other site 424182009376 Walker B; other site 424182009377 D-loop; other site 424182009378 H-loop/switch region; other site 424182009379 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 424182009380 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 424182009381 TM-ABC transporter signature motif; other site 424182009382 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 424182009383 TM-ABC transporter signature motif; other site 424182009384 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 424182009385 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 424182009386 ligand binding site [chemical binding]; other site 424182009387 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 424182009388 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182009389 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; cl00279 424182009390 active site 424182009391 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 424182009392 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182009393 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 424182009394 tetramerization interface [polypeptide binding]; other site 424182009395 NAD(P) binding site [chemical binding]; other site 424182009396 catalytic residues [active] 424182009397 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 424182009398 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 424182009399 active site 424182009400 NAD binding site [chemical binding]; other site 424182009401 metal binding site [ion binding]; metal-binding site 424182009402 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 424182009403 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182009404 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182009405 DNA-binding site [nucleotide binding]; DNA binding site 424182009406 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182009407 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182009408 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 424182009409 NAD(P) binding site [chemical binding]; other site 424182009410 catalytic residues [active] 424182009411 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 424182009412 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 424182009413 active site 424182009414 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 424182009415 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 424182009416 active site 424182009417 dimer interface [polypeptide binding]; other site 424182009418 metal binding site [ion binding]; metal-binding site 424182009419 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 424182009420 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 424182009421 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 424182009422 homodimer interface [polypeptide binding]; other site 424182009423 NADP binding site [chemical binding]; other site 424182009424 substrate binding site [chemical binding]; other site 424182009425 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 424182009426 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 424182009427 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 424182009428 putative active site [active] 424182009429 putative substrate binding site [chemical binding]; other site 424182009430 putative cosubstrate binding site; other site 424182009431 catalytic site [active] 424182009432 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 424182009433 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 424182009434 Walker A/P-loop; other site 424182009435 ATP binding site [chemical binding]; other site 424182009436 Q-loop/lid; other site 424182009437 ABC transporter signature motif; other site 424182009438 Walker B; other site 424182009439 D-loop; other site 424182009440 H-loop/switch region; other site 424182009441 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182009442 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 424182009443 Walker A/P-loop; other site 424182009444 ATP binding site [chemical binding]; other site 424182009445 Q-loop/lid; other site 424182009446 ABC transporter signature motif; other site 424182009447 Walker B; other site 424182009448 D-loop; other site 424182009449 H-loop/switch region; other site 424182009450 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 424182009451 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 424182009452 TM-ABC transporter signature motif; other site 424182009453 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 424182009454 TM-ABC transporter signature motif; other site 424182009455 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 424182009456 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 424182009457 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; cl00246 424182009458 FAD binding site [chemical binding]; other site 424182009459 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 424182009460 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 424182009461 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182009462 MarR family; Region: MarR_2; pfam12802 424182009463 hypothetical protein; Provisional; Region: PRK06126 424182009464 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 424182009465 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 424182009466 catalytic tetrad [active] 424182009467 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 424182009468 active site 424182009469 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 424182009470 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 424182009471 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 424182009472 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 424182009473 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 424182009474 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 424182009475 nitrile hydratase, alpha subunit; Region: nitrile_alph; TIGR01323 424182009476 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 424182009477 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 424182009478 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 424182009479 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 424182009480 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 424182009481 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 424182009482 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 424182009483 conserved cys residue [active] 424182009484 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182009485 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 424182009486 Transposase; Region: DEDD_Tnp_IS110; pfam01548 424182009487 Amidinotransferase; Region: Amidinotransf; cl12043 424182009488 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 424182009489 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182009490 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182009491 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 424182009492 dimerization interface [polypeptide binding]; other site 424182009493 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 424182009494 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182009495 substrate binding pocket [chemical binding]; other site 424182009496 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182009497 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 424182009498 membrane-bound complex binding site; other site 424182009499 hinge residues; other site 424182009500 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182009501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009502 dimer interface [polypeptide binding]; other site 424182009503 conserved gate region; other site 424182009504 ABC-ATPase subunit interface; other site 424182009505 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182009506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009507 dimer interface [polypeptide binding]; other site 424182009508 conserved gate region; other site 424182009509 putative PBP binding loops; other site 424182009510 ABC-ATPase subunit interface; other site 424182009511 allantoate amidohydrolase; Reviewed; Region: PRK12893 424182009512 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 424182009513 active site 424182009514 metal binding site [ion binding]; metal-binding site 424182009515 dimer interface [polypeptide binding]; other site 424182009516 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182009517 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182009518 Walker A/P-loop; other site 424182009519 ATP binding site [chemical binding]; other site 424182009520 Q-loop/lid; other site 424182009521 ABC transporter signature motif; other site 424182009522 Walker B; other site 424182009523 D-loop; other site 424182009524 H-loop/switch region; other site 424182009525 homoserine dehydrogenase; Provisional; Region: PRK06270 424182009526 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 424182009527 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 424182009528 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 424182009529 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 424182009530 Phosphotransferase enzyme family; Region: APH; pfam01636 424182009531 active site 424182009532 substrate binding site [chemical binding]; other site 424182009533 ATP binding site [chemical binding]; other site 424182009534 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182009535 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 424182009536 AsnC family; Region: AsnC_trans_reg; pfam01037 424182009537 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 424182009538 dimer interaction site [polypeptide binding]; other site 424182009539 substrate-binding tunnel; other site 424182009540 active site 424182009541 catalytic site [active] 424182009542 substrate binding site [chemical binding]; other site 424182009543 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 424182009544 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 424182009545 putative substrate translocation pore; other site 424182009546 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 424182009547 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182009548 NAD(P) binding site [chemical binding]; other site 424182009549 catalytic residues [active] 424182009550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 424182009551 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 424182009552 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 424182009553 L-aspartate oxidase; Provisional; Region: PRK06175 424182009554 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 424182009555 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 424182009556 Coenzyme A transferase; Region: CoA_trans; smart00882 424182009557 Coenzyme A transferase; Region: CoA_trans; cl17247 424182009558 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182009559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182009560 NAD(P) binding site [chemical binding]; other site 424182009561 active site 424182009562 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 424182009563 Amidase; Region: Amidase; pfam01425 424182009564 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 424182009565 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182009566 Walker A/P-loop; other site 424182009567 ATP binding site [chemical binding]; other site 424182009568 Q-loop/lid; other site 424182009569 ABC transporter signature motif; other site 424182009570 Walker B; other site 424182009571 D-loop; other site 424182009572 H-loop/switch region; other site 424182009573 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182009574 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 424182009575 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182009576 Walker A/P-loop; other site 424182009577 ATP binding site [chemical binding]; other site 424182009578 Q-loop/lid; other site 424182009579 ABC transporter signature motif; other site 424182009580 Walker B; other site 424182009581 D-loop; other site 424182009582 H-loop/switch region; other site 424182009583 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182009584 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 424182009585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009586 dimer interface [polypeptide binding]; other site 424182009587 conserved gate region; other site 424182009588 putative PBP binding loops; other site 424182009589 ABC-ATPase subunit interface; other site 424182009590 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182009591 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009592 dimer interface [polypeptide binding]; other site 424182009593 conserved gate region; other site 424182009594 putative PBP binding loops; other site 424182009595 ABC-ATPase subunit interface; other site 424182009596 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182009597 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 424182009598 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 424182009599 dimer interaction site [polypeptide binding]; other site 424182009600 substrate-binding tunnel; other site 424182009601 active site 424182009602 catalytic site [active] 424182009603 substrate binding site [chemical binding]; other site 424182009604 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182009605 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182009606 DNA binding site [nucleotide binding] 424182009607 domain linker motif; other site 424182009608 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 424182009609 Hemerythrin-like domain; Region: Hr-like; cd12108 424182009610 Fe binding site [ion binding]; other site 424182009611 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 424182009612 classical (c) SDRs; Region: SDR_c; cd05233 424182009613 NAD(P) binding site [chemical binding]; other site 424182009614 active site 424182009615 Predicted transcriptional regulators [Transcription]; Region: COG1733 424182009616 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 424182009617 dimerization interface [polypeptide binding]; other site 424182009618 putative DNA binding site [nucleotide binding]; other site 424182009619 putative Zn2+ binding site [ion binding]; other site 424182009620 hypothetical protein; Validated; Region: PRK07121 424182009621 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182009622 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 424182009623 putative DNA binding site [nucleotide binding]; other site 424182009624 putative Zn2+ binding site [ion binding]; other site 424182009625 AsnC family; Region: AsnC_trans_reg; pfam01037 424182009626 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 424182009627 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182009628 catalytic residue [active] 424182009629 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 424182009630 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182009631 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 424182009632 active site 424182009633 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 424182009634 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182009635 substrate binding pocket [chemical binding]; other site 424182009636 membrane-bound complex binding site; other site 424182009637 hinge residues; other site 424182009638 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182009639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009640 dimer interface [polypeptide binding]; other site 424182009641 conserved gate region; other site 424182009642 putative PBP binding loops; other site 424182009643 ABC-ATPase subunit interface; other site 424182009644 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182009645 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182009646 Walker A/P-loop; other site 424182009647 ATP binding site [chemical binding]; other site 424182009648 Q-loop/lid; other site 424182009649 ABC transporter signature motif; other site 424182009650 Walker B; other site 424182009651 D-loop; other site 424182009652 H-loop/switch region; other site 424182009653 allantoate amidohydrolase; Reviewed; Region: PRK12890 424182009654 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 424182009655 active site 424182009656 metal binding site [ion binding]; metal-binding site 424182009657 dimer interface [polypeptide binding]; other site 424182009658 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182009659 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182009660 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 424182009661 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182009662 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182009663 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182009664 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182009665 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182009666 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 424182009667 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182009668 DNA binding site [nucleotide binding] 424182009669 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 424182009670 putative ligand binding site [chemical binding]; other site 424182009671 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 424182009672 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182009673 putative ligand binding site [chemical binding]; other site 424182009674 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182009675 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182009676 Walker A/P-loop; other site 424182009677 ATP binding site [chemical binding]; other site 424182009678 Q-loop/lid; other site 424182009679 ABC transporter signature motif; other site 424182009680 Walker B; other site 424182009681 D-loop; other site 424182009682 H-loop/switch region; other site 424182009683 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182009684 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 424182009685 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182009686 TM-ABC transporter signature motif; other site 424182009687 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182009688 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182009689 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182009690 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182009691 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 424182009692 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182009693 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 424182009694 substrate binding site [chemical binding]; other site 424182009695 ATP binding site [chemical binding]; other site 424182009696 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 424182009697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 424182009698 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 424182009699 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 424182009700 PYR/PP interface [polypeptide binding]; other site 424182009701 dimer interface [polypeptide binding]; other site 424182009702 TPP binding site [chemical binding]; other site 424182009703 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 424182009704 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 424182009705 TPP-binding site [chemical binding]; other site 424182009706 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182009707 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 424182009708 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 424182009709 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 424182009710 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 424182009711 putative active site [active] 424182009712 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182009713 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182009714 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182009715 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182009716 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182009717 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182009718 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182009719 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182009720 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182009721 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182009722 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 424182009723 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182009724 DNA binding site [nucleotide binding] 424182009725 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 424182009726 putative ligand binding site [chemical binding]; other site 424182009727 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 424182009728 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 424182009729 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182009730 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 424182009731 active site pocket [active] 424182009732 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 424182009733 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 424182009734 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182009735 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182009736 Walker A/P-loop; other site 424182009737 ATP binding site [chemical binding]; other site 424182009738 Q-loop/lid; other site 424182009739 ABC transporter signature motif; other site 424182009740 Walker B; other site 424182009741 D-loop; other site 424182009742 H-loop/switch region; other site 424182009743 TOBE domain; Region: TOBE_2; pfam08402 424182009744 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182009745 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009746 dimer interface [polypeptide binding]; other site 424182009747 conserved gate region; other site 424182009748 putative PBP binding loops; other site 424182009749 ABC-ATPase subunit interface; other site 424182009750 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182009751 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009752 dimer interface [polypeptide binding]; other site 424182009753 conserved gate region; other site 424182009754 putative PBP binding loops; other site 424182009755 ABC-ATPase subunit interface; other site 424182009756 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182009757 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182009758 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 424182009759 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 424182009760 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182009761 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182009762 DNA binding site [nucleotide binding] 424182009763 domain linker motif; other site 424182009764 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 424182009765 dimerization interface [polypeptide binding]; other site 424182009766 ligand binding site [chemical binding]; other site 424182009767 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 424182009768 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 424182009769 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase; Region: RhaD_aldol-ADH; TIGR02632 424182009770 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 424182009771 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 424182009772 putative NAD(P) binding site [chemical binding]; other site 424182009773 active site 424182009774 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 424182009775 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 424182009776 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 424182009777 Transposase; Region: HTH_Tnp_1; cl17663 424182009778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182009779 HTH-like domain; Region: HTH_21; pfam13276 424182009780 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 424182009781 Integrase core domain; Region: rve; pfam00665 424182009782 Integrase core domain; Region: rve_3; pfam13683 424182009783 Protein of unknown function (DUF982); Region: DUF982; pfam06169 424182009784 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 424182009785 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 424182009786 active site 424182009787 catalytic site [active] 424182009788 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 424182009789 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 424182009790 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 424182009791 catalytic site [active] 424182009792 active site 424182009793 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 424182009794 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182009795 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182009796 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 424182009797 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182009798 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182009799 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182009800 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 424182009801 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 424182009802 CGNR zinc finger; Region: zf-CGNR; pfam11706 424182009803 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 424182009804 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182009805 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182009806 Uncharacterized conserved protein [Function unknown]; Region: COG5397 424182009807 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 424182009808 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 424182009809 ligand binding site [chemical binding]; other site 424182009810 flexible hinge region; other site 424182009811 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 424182009812 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 424182009813 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182009814 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182009815 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182009816 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 424182009817 putative active site [active] 424182009818 homotrimer interaction site [polypeptide binding]; other site 424182009819 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 424182009820 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 424182009821 putative active site pocket [active] 424182009822 dimerization interface [polypeptide binding]; other site 424182009823 putative catalytic residue [active] 424182009824 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 424182009825 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 424182009826 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 424182009827 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 424182009828 ligand binding site [chemical binding]; other site 424182009829 flexible hinge region; other site 424182009830 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 424182009831 putative switch regulator; other site 424182009832 non-specific DNA interactions [nucleotide binding]; other site 424182009833 DNA binding site [nucleotide binding] 424182009834 sequence specific DNA binding site [nucleotide binding]; other site 424182009835 putative cAMP binding site [chemical binding]; other site 424182009836 Uncharacterized conserved protein [Function unknown]; Region: COG1262 424182009837 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 424182009838 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 424182009839 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 424182009840 Multicopper oxidase; Region: Cu-oxidase; pfam00394 424182009841 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 424182009842 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 424182009843 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 424182009844 Uncharacterized conserved protein [Function unknown]; Region: COG4309 424182009845 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 424182009846 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 424182009847 metal ion-dependent adhesion site (MIDAS); other site 424182009848 MoxR-like ATPases [General function prediction only]; Region: COG0714 424182009849 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 424182009850 Walker A motif; other site 424182009851 ATP binding site [chemical binding]; other site 424182009852 Walker B motif; other site 424182009853 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 424182009854 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 424182009855 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 424182009856 Low-spin heme binding site [chemical binding]; other site 424182009857 D-pathway; other site 424182009858 K-pathway; other site 424182009859 Binuclear center (active site) [active] 424182009860 Putative proton exit pathway; other site 424182009861 Putative water exit pathway; other site 424182009862 Cytochrome c; Region: Cytochrom_C; pfam00034 424182009863 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 424182009864 Subunit I/III interface [polypeptide binding]; other site 424182009865 Predicted membrane protein [Function unknown]; Region: COG4094 424182009866 Flavoprotein; Region: Flavoprotein; pfam02441 424182009867 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 424182009868 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 424182009869 Uncharacterized conserved protein [Function unknown]; Region: COG3189 424182009870 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 424182009871 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 424182009872 Peptidase family U32; Region: Peptidase_U32; pfam01136 424182009873 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 424182009874 putative protease; Provisional; Region: PRK15447 424182009875 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182009876 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 424182009877 membrane-bound complex binding site; other site 424182009878 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182009879 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009880 dimer interface [polypeptide binding]; other site 424182009881 conserved gate region; other site 424182009882 putative PBP binding loops; other site 424182009883 ABC-ATPase subunit interface; other site 424182009884 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 424182009885 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182009886 Walker A/P-loop; other site 424182009887 ATP binding site [chemical binding]; other site 424182009888 Q-loop/lid; other site 424182009889 ABC transporter signature motif; other site 424182009890 Walker B; other site 424182009891 D-loop; other site 424182009892 H-loop/switch region; other site 424182009893 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 424182009894 Periplasmic nitrate reductase system, NapE component [Energy production and conversion]; Region: NapE; COG4459 424182009895 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 424182009896 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 424182009897 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 424182009898 [4Fe-4S] binding site [ion binding]; other site 424182009899 molybdopterin cofactor binding site; other site 424182009900 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 424182009901 molybdopterin cofactor binding site; other site 424182009902 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 424182009903 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 424182009904 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 424182009905 Uncharacterized conserved protein [Function unknown]; Region: COG2135 424182009906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 424182009907 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 424182009908 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 424182009909 oligomer interface [polypeptide binding]; other site 424182009910 metal binding site [ion binding]; metal-binding site 424182009911 metal binding site [ion binding]; metal-binding site 424182009912 putative Cl binding site [ion binding]; other site 424182009913 basic sphincter; other site 424182009914 hydrophobic gate; other site 424182009915 periplasmic entrance; other site 424182009916 Uncharacterized conserved protein [Function unknown]; Region: COG4544 424182009917 DNA Polymerase Y-family; Region: PolY_like; cd03468 424182009918 active site 424182009919 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 424182009920 DNA binding site [nucleotide binding] 424182009921 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 424182009922 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 424182009923 putative active site [active] 424182009924 putative PHP Thumb interface [polypeptide binding]; other site 424182009925 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 424182009926 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 424182009927 generic binding surface I; other site 424182009928 generic binding surface II; other site 424182009929 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 424182009930 non-specific DNA binding site [nucleotide binding]; other site 424182009931 salt bridge; other site 424182009932 sequence-specific DNA binding site [nucleotide binding]; other site 424182009933 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 424182009934 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 424182009935 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 424182009936 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 424182009937 DDE domain; Region: DDE_Tnp_IS240; pfam13610 424182009938 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 424182009939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 424182009940 aldehyde dehydrogenase family 7 member; Region: PLN02315 424182009941 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 424182009942 tetrameric interface [polypeptide binding]; other site 424182009943 NAD binding site [chemical binding]; other site 424182009944 catalytic residues [active] 424182009945 aspartate aminotransferase; Provisional; Region: PRK05764 424182009946 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 424182009947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182009948 homodimer interface [polypeptide binding]; other site 424182009949 catalytic residue [active] 424182009950 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 424182009951 FAD binding domain; Region: FAD_binding_4; pfam01565 424182009952 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 424182009953 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 424182009954 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 424182009955 PYR/PP interface [polypeptide binding]; other site 424182009956 dimer interface [polypeptide binding]; other site 424182009957 TPP binding site [chemical binding]; other site 424182009958 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 424182009959 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 424182009960 TPP-binding site [chemical binding]; other site 424182009961 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182009962 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182009963 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182009964 Walker A/P-loop; other site 424182009965 ATP binding site [chemical binding]; other site 424182009966 Q-loop/lid; other site 424182009967 ABC transporter signature motif; other site 424182009968 Walker B; other site 424182009969 D-loop; other site 424182009970 H-loop/switch region; other site 424182009971 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182009972 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182009973 dimer interface [polypeptide binding]; other site 424182009974 conserved gate region; other site 424182009975 putative PBP binding loops; other site 424182009976 ABC-ATPase subunit interface; other site 424182009977 hypothetical protein; Provisional; Region: PRK07475 424182009978 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 424182009979 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182009980 substrate binding pocket [chemical binding]; other site 424182009981 membrane-bound complex binding site; other site 424182009982 hinge residues; other site 424182009983 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182009984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182009985 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 424182009986 dimerization interface [polypeptide binding]; other site 424182009987 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 424182009988 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 424182009989 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 424182009990 TPP-binding site [chemical binding]; other site 424182009991 dimer interface [polypeptide binding]; other site 424182009992 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 424182009993 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 424182009994 PYR/PP interface [polypeptide binding]; other site 424182009995 dimer interface [polypeptide binding]; other site 424182009996 TPP binding site [chemical binding]; other site 424182009997 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 424182009998 succinic semialdehyde dehydrogenase; Region: PLN02278 424182009999 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 424182010000 tetramerization interface [polypeptide binding]; other site 424182010001 NAD(P) binding site [chemical binding]; other site 424182010002 catalytic residues [active] 424182010003 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 424182010004 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 424182010005 putative NAD(P) binding site [chemical binding]; other site 424182010006 catalytic Zn binding site [ion binding]; other site 424182010007 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 424182010008 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 424182010009 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 424182010010 shikimate binding site; other site 424182010011 NAD(P) binding site [chemical binding]; other site 424182010012 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 424182010013 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 424182010014 dimer interface [polypeptide binding]; other site 424182010015 active site 424182010016 metal binding site [ion binding]; metal-binding site 424182010017 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 424182010018 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182010019 NAD(P) binding site [chemical binding]; other site 424182010020 active site 424182010021 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182010022 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 424182010023 active site pocket [active] 424182010024 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182010025 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 424182010026 active site 424182010027 metal binding site [ion binding]; metal-binding site 424182010028 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182010029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182010030 DNA-binding site [nucleotide binding]; DNA binding site 424182010031 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182010032 putative glutathione S-transferase; Provisional; Region: PRK10357 424182010033 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 424182010034 putative C-terminal domain interface [polypeptide binding]; other site 424182010035 putative GSH binding site (G-site) [chemical binding]; other site 424182010036 putative dimer interface [polypeptide binding]; other site 424182010037 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 424182010038 dimer interface [polypeptide binding]; other site 424182010039 N-terminal domain interface [polypeptide binding]; other site 424182010040 putative substrate binding pocket (H-site) [chemical binding]; other site 424182010041 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 424182010042 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 424182010043 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 424182010044 DctM-like transporters; Region: DctM; pfam06808 424182010045 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 424182010046 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 424182010047 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 424182010048 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 424182010049 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 424182010050 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 424182010051 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 424182010052 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 424182010053 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 424182010054 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182010055 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010056 Walker A/P-loop; other site 424182010057 ATP binding site [chemical binding]; other site 424182010058 Q-loop/lid; other site 424182010059 ABC transporter signature motif; other site 424182010060 Walker B; other site 424182010061 D-loop; other site 424182010062 H-loop/switch region; other site 424182010063 TOBE domain; Region: TOBE_2; pfam08402 424182010064 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010065 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010066 dimer interface [polypeptide binding]; other site 424182010067 conserved gate region; other site 424182010068 putative PBP binding loops; other site 424182010069 ABC-ATPase subunit interface; other site 424182010070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010071 dimer interface [polypeptide binding]; other site 424182010072 conserved gate region; other site 424182010073 putative PBP binding loops; other site 424182010074 ABC-ATPase subunit interface; other site 424182010075 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010076 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182010077 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 424182010078 Aspartase; Region: Aspartase; cd01357 424182010079 active sites [active] 424182010080 tetramer interface [polypeptide binding]; other site 424182010081 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 424182010082 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182010083 putative metal binding site [ion binding]; other site 424182010084 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 424182010085 D-galactonate transporter; Region: 2A0114; TIGR00893 424182010086 putative substrate translocation pore; other site 424182010087 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 424182010088 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 424182010089 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 424182010090 MarR family; Region: MarR_2; cl17246 424182010091 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 424182010092 CoA-transferase family III; Region: CoA_transf_3; pfam02515 424182010093 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 424182010094 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 424182010095 short chain dehydrogenase; Provisional; Region: PRK06841 424182010096 classical (c) SDRs; Region: SDR_c; cd05233 424182010097 NAD(P) binding site [chemical binding]; other site 424182010098 active site 424182010099 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 424182010100 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 424182010101 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 424182010102 TM-ABC transporter signature motif; other site 424182010103 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182010104 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 424182010105 TM-ABC transporter signature motif; other site 424182010106 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182010107 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 424182010108 Walker A/P-loop; other site 424182010109 ATP binding site [chemical binding]; other site 424182010110 Q-loop/lid; other site 424182010111 ABC transporter signature motif; other site 424182010112 Walker B; other site 424182010113 D-loop; other site 424182010114 H-loop/switch region; other site 424182010115 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 424182010116 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 424182010117 Walker A/P-loop; other site 424182010118 ATP binding site [chemical binding]; other site 424182010119 Q-loop/lid; other site 424182010120 ABC transporter signature motif; other site 424182010121 Walker B; other site 424182010122 D-loop; other site 424182010123 H-loop/switch region; other site 424182010124 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 424182010125 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 424182010126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182010127 DNA-binding site [nucleotide binding]; DNA binding site 424182010128 FCD domain; Region: FCD; pfam07729 424182010129 Isochorismatase family; Region: Isochorismatase; pfam00857 424182010130 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 424182010131 catalytic triad [active] 424182010132 conserved cis-peptide bond; other site 424182010133 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 424182010134 active site 424182010135 catalytic site [active] 424182010136 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 424182010137 active site 2 [active] 424182010138 active site 1 [active] 424182010139 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 424182010140 CoA-transferase family III; Region: CoA_transf_3; pfam02515 424182010141 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 424182010142 CoA-transferase family III; Region: CoA_transf_3; pfam02515 424182010143 Uncharacterized conserved protein [Function unknown]; Region: COG3777 424182010144 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 424182010145 active site 2 [active] 424182010146 active site 1 [active] 424182010147 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 424182010148 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 424182010149 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 424182010150 phosphate binding site [ion binding]; other site 424182010151 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 424182010152 nucleotide binding site [chemical binding]; other site 424182010153 Transposase; Region: HTH_Tnp_1; cl17663 424182010154 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182010155 HTH-like domain; Region: HTH_21; pfam13276 424182010156 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 424182010157 Integrase core domain; Region: rve; pfam00665 424182010158 Integrase core domain; Region: rve_3; pfam13683 424182010159 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 424182010160 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 424182010161 putative active site [active] 424182010162 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 424182010163 putative cyanate transporter; Provisional; Region: cynX; PRK09705 424182010164 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 424182010165 tartronate semialdehyde reductase; Provisional; Region: PRK15059 424182010166 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 424182010167 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 424182010168 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182010169 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182010170 Walker A/P-loop; other site 424182010171 ATP binding site [chemical binding]; other site 424182010172 Q-loop/lid; other site 424182010173 ABC transporter signature motif; other site 424182010174 Walker B; other site 424182010175 D-loop; other site 424182010176 H-loop/switch region; other site 424182010177 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182010178 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182010179 Walker A/P-loop; other site 424182010180 ATP binding site [chemical binding]; other site 424182010181 Q-loop/lid; other site 424182010182 ABC transporter signature motif; other site 424182010183 Walker B; other site 424182010184 D-loop; other site 424182010185 H-loop/switch region; other site 424182010186 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182010187 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 424182010188 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182010189 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010190 dimer interface [polypeptide binding]; other site 424182010191 conserved gate region; other site 424182010192 putative PBP binding loops; other site 424182010193 ABC-ATPase subunit interface; other site 424182010194 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182010195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010196 dimer interface [polypeptide binding]; other site 424182010197 conserved gate region; other site 424182010198 putative PBP binding loops; other site 424182010199 ABC-ATPase subunit interface; other site 424182010200 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 424182010201 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 424182010202 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182010203 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 424182010204 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182010205 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182010206 DNA binding site [nucleotide binding] 424182010207 domain linker motif; other site 424182010208 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 424182010209 dimerization interface [polypeptide binding]; other site 424182010210 ligand binding site [chemical binding]; other site 424182010211 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 424182010212 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 424182010213 putative active site [active] 424182010214 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 424182010215 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 424182010216 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 424182010217 Antitoxin ParD; Region: ParD; pfam09386 424182010218 HAMP domain; Region: HAMP; pfam00672 424182010219 dimerization interface [polypeptide binding]; other site 424182010220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182010221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182010222 dimer interface [polypeptide binding]; other site 424182010223 putative CheW interface [polypeptide binding]; other site 424182010224 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 424182010225 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 424182010226 HipA N-terminal domain; Region: Couple_hipA; pfam13657 424182010227 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 424182010228 HipA-like N-terminal domain; Region: HipA_N; pfam07805 424182010229 HipA-like C-terminal domain; Region: HipA_C; pfam07804 424182010230 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182010231 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 424182010232 non-specific DNA binding site [nucleotide binding]; other site 424182010233 salt bridge; other site 424182010234 sequence-specific DNA binding site [nucleotide binding]; other site 424182010235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 424182010236 Integrase core domain; Region: rve; pfam00665 424182010237 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 424182010238 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182010239 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 424182010240 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 424182010241 Integrase core domain; Region: rve; pfam00665 424182010242 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 424182010243 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 424182010244 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 424182010245 active site 424182010246 DNA binding site [nucleotide binding] 424182010247 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 424182010248 DNA binding site [nucleotide binding] 424182010249 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 424182010250 nucleotide binding site [chemical binding]; other site 424182010251 Protein of unknown function (DUF982); Region: DUF982; pfam06169 424182010252 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 424182010253 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 424182010254 putative dimer interface [polypeptide binding]; other site 424182010255 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 424182010256 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 424182010257 active site 424182010258 DNA binding site [nucleotide binding] 424182010259 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 424182010260 DNA binding site [nucleotide binding] 424182010261 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 424182010262 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 424182010263 putative DNA binding site [nucleotide binding]; other site 424182010264 putative homodimer interface [polypeptide binding]; other site 424182010265 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 424182010266 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 424182010267 putative DNA binding site [nucleotide binding]; other site 424182010268 putative homodimer interface [polypeptide binding]; other site 424182010269 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 424182010270 putative catalytic site [active] 424182010271 putative phosphate binding site [ion binding]; other site 424182010272 active site 424182010273 metal binding site A [ion binding]; metal-binding site 424182010274 DNA binding site [nucleotide binding] 424182010275 putative AP binding site [nucleotide binding]; other site 424182010276 putative metal binding site B [ion binding]; other site 424182010277 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 424182010278 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 424182010279 DctM-like transporters; Region: DctM; pfam06808 424182010280 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 424182010281 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 424182010282 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182010283 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 424182010284 active site 424182010285 phosphorylation site [posttranslational modification] 424182010286 intermolecular recognition site; other site 424182010287 dimerization interface [polypeptide binding]; other site 424182010288 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 424182010289 DNA binding residues [nucleotide binding] 424182010290 dimerization interface [polypeptide binding]; other site 424182010291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 424182010292 Cache domain; Region: Cache_2; cl07034 424182010293 Histidine kinase; Region: HisKA_3; pfam07730 424182010294 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 424182010295 ATP binding site [chemical binding]; other site 424182010296 Mg2+ binding site [ion binding]; other site 424182010297 G-X-G motif; other site 424182010298 Uncharacterized conserved protein [Function unknown]; Region: COG3791 424182010299 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 424182010300 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 424182010301 putative active site [active] 424182010302 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 424182010303 Bacterial SH3 domain; Region: SH3_3; pfam08239 424182010304 Transposase; Region: HTH_Tnp_1; cl17663 424182010305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182010306 HTH-like domain; Region: HTH_21; pfam13276 424182010307 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 424182010308 Integrase core domain; Region: rve; pfam00665 424182010309 Integrase core domain; Region: rve_3; pfam13683 424182010310 CHC2 zinc finger; Region: zf-CHC2; cl17510 424182010311 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 424182010312 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 424182010313 active site 424182010314 metal binding site [ion binding]; metal-binding site 424182010315 interdomain interaction site; other site 424182010316 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 424182010317 putative active site [active] 424182010318 putative NTP binding site [chemical binding]; other site 424182010319 putative nucleic acid binding site [nucleotide binding]; other site 424182010320 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 424182010321 active site 424182010322 catalytic triad [active] 424182010323 dimer interface [polypeptide binding]; other site 424182010324 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 424182010325 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 424182010326 active site 424182010327 catalytic site [active] 424182010328 substrate binding site [chemical binding]; other site 424182010329 Protein of unknown function DUF262; Region: DUF262; pfam03235 424182010330 Uncharacterized conserved protein [Function unknown]; Region: COG1479 424182010331 Protein of unknown function DUF262; Region: DUF262; pfam03235 424182010332 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 424182010333 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 424182010334 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 424182010335 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 424182010336 putative hydrophobic ligand binding site [chemical binding]; other site 424182010337 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 424182010338 putative hydrophobic ligand binding site [chemical binding]; other site 424182010339 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 424182010340 dimerization interface [polypeptide binding]; other site 424182010341 putative DNA binding site [nucleotide binding]; other site 424182010342 putative Zn2+ binding site [ion binding]; other site 424182010343 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 424182010344 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 424182010345 Curlin associated repeat; Region: Curlin_rpt; pfam07012 424182010346 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 424182010347 binding surface 424182010348 TPR motif; other site 424182010349 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 424182010350 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 424182010351 trimer interface [polypeptide binding]; other site 424182010352 active site 424182010353 substrate binding site [chemical binding]; other site 424182010354 CoA binding site [chemical binding]; other site 424182010355 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 424182010356 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 424182010357 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182010358 dimer interface [polypeptide binding]; other site 424182010359 putative CheW interface [polypeptide binding]; other site 424182010360 Aconitase B [Energy production and conversion]; Region: AcnB; COG1049 424182010361 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 424182010362 substrate binding site [chemical binding]; other site 424182010363 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 424182010364 substrate binding site [chemical binding]; other site 424182010365 ligand binding site [chemical binding]; other site 424182010366 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 424182010367 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 424182010368 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 424182010369 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182010370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182010371 The C-terminal substrate domain of LysR-type transcriptional regulator AmpR that involved in control of the expression of beta-lactamase gene ampC, contains the type 2 periplasmic binding fold; Region: PBP2_AmpR; cd08488 424182010372 putative dimerization interface [polypeptide binding]; other site 424182010373 putative substrate binding pocket [chemical binding]; other site 424182010374 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 424182010375 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 424182010376 Chromate transporter; Region: Chromate_transp; pfam02417 424182010377 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 424182010378 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182010379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010380 dimer interface [polypeptide binding]; other site 424182010381 conserved gate region; other site 424182010382 putative PBP binding loops; other site 424182010383 ABC-ATPase subunit interface; other site 424182010384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010385 dimer interface [polypeptide binding]; other site 424182010386 conserved gate region; other site 424182010387 putative PBP binding loops; other site 424182010388 ABC-ATPase subunit interface; other site 424182010389 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182010390 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182010391 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182010392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182010393 Walker A/P-loop; other site 424182010394 ATP binding site [chemical binding]; other site 424182010395 Q-loop/lid; other site 424182010396 ABC transporter signature motif; other site 424182010397 Walker B; other site 424182010398 D-loop; other site 424182010399 H-loop/switch region; other site 424182010400 TOBE domain; Region: TOBE_2; pfam08402 424182010401 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182010402 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182010403 Walker A/P-loop; other site 424182010404 ATP binding site [chemical binding]; other site 424182010405 Q-loop/lid; other site 424182010406 ABC transporter signature motif; other site 424182010407 Walker B; other site 424182010408 D-loop; other site 424182010409 H-loop/switch region; other site 424182010410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010411 dimer interface [polypeptide binding]; other site 424182010412 conserved gate region; other site 424182010413 putative PBP binding loops; other site 424182010414 ABC-ATPase subunit interface; other site 424182010415 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182010416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010417 dimer interface [polypeptide binding]; other site 424182010418 conserved gate region; other site 424182010419 putative PBP binding loops; other site 424182010420 ABC-ATPase subunit interface; other site 424182010421 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182010422 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 424182010423 substrate binding pocket [chemical binding]; other site 424182010424 membrane-bound complex binding site; other site 424182010425 hinge residues; other site 424182010426 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182010427 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182010428 DNA-binding site [nucleotide binding]; DNA binding site 424182010429 FCD domain; Region: FCD; pfam07729 424182010430 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 424182010431 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 424182010432 active site 424182010433 catalytic site [active] 424182010434 substrate binding site [chemical binding]; other site 424182010435 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 424182010436 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 424182010437 N-acetyl-D-glucosamine binding site [chemical binding]; other site 424182010438 catalytic residue [active] 424182010439 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 424182010440 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 424182010441 putative active site [active] 424182010442 heme pocket [chemical binding]; other site 424182010443 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 424182010444 putative active site [active] 424182010445 heme pocket [chemical binding]; other site 424182010446 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182010447 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182010448 dimer interface [polypeptide binding]; other site 424182010449 putative CheW interface [polypeptide binding]; other site 424182010450 Phospholipid methyltransferase; Region: PEMT; cl17370 424182010451 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 424182010452 dimer interface [polypeptide binding]; other site 424182010453 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010454 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182010455 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010456 dimer interface [polypeptide binding]; other site 424182010457 conserved gate region; other site 424182010458 putative PBP binding loops; other site 424182010459 ABC-ATPase subunit interface; other site 424182010460 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010462 dimer interface [polypeptide binding]; other site 424182010463 conserved gate region; other site 424182010464 putative PBP binding loops; other site 424182010465 ABC-ATPase subunit interface; other site 424182010466 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182010467 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010468 Walker A/P-loop; other site 424182010469 ATP binding site [chemical binding]; other site 424182010470 Q-loop/lid; other site 424182010471 ABC transporter signature motif; other site 424182010472 Walker B; other site 424182010473 D-loop; other site 424182010474 H-loop/switch region; other site 424182010475 TOBE domain; Region: TOBE_2; pfam08402 424182010476 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 424182010477 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 424182010478 active site 424182010479 non-prolyl cis peptide bond; other site 424182010480 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 424182010481 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 424182010482 substrate binding pocket [chemical binding]; other site 424182010483 membrane-bound complex binding site; other site 424182010484 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182010485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010486 dimer interface [polypeptide binding]; other site 424182010487 conserved gate region; other site 424182010488 ABC-ATPase subunit interface; other site 424182010489 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 424182010490 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182010491 Walker A/P-loop; other site 424182010492 ATP binding site [chemical binding]; other site 424182010493 Q-loop/lid; other site 424182010494 ABC transporter signature motif; other site 424182010495 Walker B; other site 424182010496 D-loop; other site 424182010497 H-loop/switch region; other site 424182010498 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010500 dimer interface [polypeptide binding]; other site 424182010501 conserved gate region; other site 424182010502 putative PBP binding loops; other site 424182010503 ABC-ATPase subunit interface; other site 424182010504 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010505 dimer interface [polypeptide binding]; other site 424182010506 conserved gate region; other site 424182010507 putative PBP binding loops; other site 424182010508 ABC-ATPase subunit interface; other site 424182010509 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010510 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182010511 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182010512 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010513 Walker A/P-loop; other site 424182010514 ATP binding site [chemical binding]; other site 424182010515 Q-loop/lid; other site 424182010516 ABC transporter signature motif; other site 424182010517 Walker B; other site 424182010518 D-loop; other site 424182010519 H-loop/switch region; other site 424182010520 TOBE domain; Region: TOBE_2; pfam08402 424182010521 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 424182010522 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 424182010523 Predicted transcriptional regulator [Transcription]; Region: COG4189 424182010524 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 424182010525 dimerization interface [polypeptide binding]; other site 424182010526 putative DNA binding site [nucleotide binding]; other site 424182010527 putative Zn2+ binding site [ion binding]; other site 424182010528 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010529 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182010530 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182010531 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182010532 DNA binding site [nucleotide binding] 424182010533 domain linker motif; other site 424182010534 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 424182010535 ligand binding site [chemical binding]; other site 424182010536 dimerization interface [polypeptide binding]; other site 424182010537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4289 424182010538 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 424182010539 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 424182010540 putative ligand binding site [chemical binding]; other site 424182010541 putative NAD binding site [chemical binding]; other site 424182010542 catalytic site [active] 424182010543 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182010544 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 424182010545 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 424182010546 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182010547 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010548 Walker A/P-loop; other site 424182010549 ATP binding site [chemical binding]; other site 424182010550 Q-loop/lid; other site 424182010551 ABC transporter signature motif; other site 424182010552 Walker B; other site 424182010553 D-loop; other site 424182010554 H-loop/switch region; other site 424182010555 TOBE domain; Region: TOBE_2; pfam08402 424182010556 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010557 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010558 dimer interface [polypeptide binding]; other site 424182010559 conserved gate region; other site 424182010560 putative PBP binding loops; other site 424182010561 ABC-ATPase subunit interface; other site 424182010562 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182010563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010564 dimer interface [polypeptide binding]; other site 424182010565 conserved gate region; other site 424182010566 putative PBP binding loops; other site 424182010567 ABC-ATPase subunit interface; other site 424182010568 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010569 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182010570 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 424182010571 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182010572 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182010573 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182010574 Protein of unknown function (DUF993); Region: DUF993; pfam06187 424182010575 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182010576 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182010577 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182010578 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182010579 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 424182010580 DNA-binding site [nucleotide binding]; DNA binding site 424182010581 RNA-binding motif; other site 424182010582 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 424182010583 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 424182010584 acyl carrier protein; Provisional; Region: acpP; PRK00982 424182010585 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 424182010586 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 424182010587 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 424182010588 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010589 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182010590 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182010591 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010592 Walker A/P-loop; other site 424182010593 ATP binding site [chemical binding]; other site 424182010594 Q-loop/lid; other site 424182010595 ABC transporter signature motif; other site 424182010596 Walker B; other site 424182010597 D-loop; other site 424182010598 H-loop/switch region; other site 424182010599 TOBE domain; Region: TOBE_2; pfam08402 424182010600 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010601 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010602 dimer interface [polypeptide binding]; other site 424182010603 conserved gate region; other site 424182010604 putative PBP binding loops; other site 424182010605 ABC-ATPase subunit interface; other site 424182010606 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182010607 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010608 dimer interface [polypeptide binding]; other site 424182010609 putative PBP binding loops; other site 424182010610 ABC-ATPase subunit interface; other site 424182010611 Cupin domain; Region: Cupin_2; cl17218 424182010612 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182010613 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182010614 DctM-like transporters; Region: DctM; pfam06808 424182010615 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 424182010616 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 424182010617 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 424182010618 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 424182010619 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 424182010620 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 424182010621 active site 424182010622 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182010623 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 424182010624 active site pocket [active] 424182010625 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 424182010626 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 424182010627 putative active site [active] 424182010628 catalytic residue [active] 424182010629 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 424182010630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182010631 NAD(P) binding site [chemical binding]; other site 424182010632 active site 424182010633 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 424182010634 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182010635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182010636 NAD(P) binding site [chemical binding]; other site 424182010637 active site 424182010638 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182010639 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182010640 DNA-binding site [nucleotide binding]; DNA binding site 424182010641 FCD domain; Region: FCD; pfam07729 424182010642 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 424182010643 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 424182010644 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182010645 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 424182010646 active site 424182010647 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182010648 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182010649 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182010650 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 424182010651 active site 424182010652 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182010653 catalytic tetrad [active] 424182010654 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182010655 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010656 Walker A/P-loop; other site 424182010657 ATP binding site [chemical binding]; other site 424182010658 Q-loop/lid; other site 424182010659 ABC transporter signature motif; other site 424182010660 Walker B; other site 424182010661 D-loop; other site 424182010662 H-loop/switch region; other site 424182010663 TOBE domain; Region: TOBE_2; pfam08402 424182010664 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010665 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010666 dimer interface [polypeptide binding]; other site 424182010667 conserved gate region; other site 424182010668 putative PBP binding loops; other site 424182010669 ABC-ATPase subunit interface; other site 424182010670 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010671 dimer interface [polypeptide binding]; other site 424182010672 conserved gate region; other site 424182010673 putative PBP binding loops; other site 424182010674 ABC-ATPase subunit interface; other site 424182010675 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010676 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182010677 Cupin domain; Region: Cupin_2; pfam07883 424182010678 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182010679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182010680 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 424182010681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182010682 Helix-turn-helix domain; Region: HTH_18; pfam12833 424182010683 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 424182010684 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182010685 putative substrate translocation pore; other site 424182010686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182010687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182010688 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 424182010689 dimerization interface [polypeptide binding]; other site 424182010690 substrate binding pocket [chemical binding]; other site 424182010691 DctM-like transporters; Region: DctM; pfam06808 424182010692 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 424182010693 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 424182010694 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 424182010695 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 424182010696 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 424182010697 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 424182010698 Uncharacterized conserved protein [Function unknown]; Region: COG1359 424182010699 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 424182010700 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182010701 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 424182010702 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182010703 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182010704 DNA binding site [nucleotide binding] 424182010705 domain linker motif; other site 424182010706 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 424182010707 ligand binding site [chemical binding]; other site 424182010708 dimerization interface [polypeptide binding]; other site 424182010709 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 424182010710 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 424182010711 putative NAD(P) binding site [chemical binding]; other site 424182010712 catalytic Zn binding site [ion binding]; other site 424182010713 sorbitol dehydrogenase; Provisional; Region: PRK07067 424182010714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182010715 NAD(P) binding site [chemical binding]; other site 424182010716 active site 424182010717 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010718 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182010719 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182010720 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 424182010721 substrate binding site [chemical binding]; other site 424182010722 ATP binding site [chemical binding]; other site 424182010723 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 424182010724 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182010725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010726 putative PBP binding loops; other site 424182010727 ABC-ATPase subunit interface; other site 424182010728 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010730 dimer interface [polypeptide binding]; other site 424182010731 conserved gate region; other site 424182010732 putative PBP binding loops; other site 424182010733 ABC-ATPase subunit interface; other site 424182010734 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182010735 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010736 Walker A/P-loop; other site 424182010737 ATP binding site [chemical binding]; other site 424182010738 Q-loop/lid; other site 424182010739 ABC transporter signature motif; other site 424182010740 Walker B; other site 424182010741 D-loop; other site 424182010742 H-loop/switch region; other site 424182010743 TOBE domain; Region: TOBE_2; pfam08402 424182010744 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182010745 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010746 Walker A/P-loop; other site 424182010747 ATP binding site [chemical binding]; other site 424182010748 Q-loop/lid; other site 424182010749 ABC transporter signature motif; other site 424182010750 Walker B; other site 424182010751 D-loop; other site 424182010752 H-loop/switch region; other site 424182010753 TOBE domain; Region: TOBE_2; pfam08402 424182010754 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010755 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010756 dimer interface [polypeptide binding]; other site 424182010757 conserved gate region; other site 424182010758 putative PBP binding loops; other site 424182010759 ABC-ATPase subunit interface; other site 424182010760 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010761 dimer interface [polypeptide binding]; other site 424182010762 conserved gate region; other site 424182010763 putative PBP binding loops; other site 424182010764 ABC-ATPase subunit interface; other site 424182010765 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010766 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182010767 hypothetical protein; Provisional; Region: PRK05968 424182010768 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 424182010769 homodimer interface [polypeptide binding]; other site 424182010770 substrate-cofactor binding pocket; other site 424182010771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182010772 catalytic residue [active] 424182010773 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182010774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182010775 DNA-binding site [nucleotide binding]; DNA binding site 424182010776 FCD domain; Region: FCD; pfam07729 424182010777 Ribonuclease HI [DNA replication, recombination, and repair]; Region: RnhA; COG0328 424182010778 RNA/DNA hybrid binding site [nucleotide binding]; other site 424182010779 active site 424182010780 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 424182010781 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 424182010782 metal binding site [ion binding]; metal-binding site 424182010783 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 424182010784 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 424182010785 ABC-ATPase subunit interface; other site 424182010786 dimer interface [polypeptide binding]; other site 424182010787 putative PBP binding regions; other site 424182010788 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 424182010789 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 424182010790 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 424182010791 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 424182010792 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 424182010793 Predicted membrane protein [Function unknown]; Region: COG1238 424182010794 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 424182010795 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 424182010796 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 424182010797 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182010798 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182010799 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182010800 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010801 dimer interface [polypeptide binding]; other site 424182010802 conserved gate region; other site 424182010803 putative PBP binding loops; other site 424182010804 ABC-ATPase subunit interface; other site 424182010805 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182010806 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010807 dimer interface [polypeptide binding]; other site 424182010808 conserved gate region; other site 424182010809 ABC-ATPase subunit interface; other site 424182010810 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182010811 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182010812 Walker A/P-loop; other site 424182010813 ATP binding site [chemical binding]; other site 424182010814 Q-loop/lid; other site 424182010815 ABC transporter signature motif; other site 424182010816 Walker B; other site 424182010817 D-loop; other site 424182010818 H-loop/switch region; other site 424182010819 TOBE domain; Region: TOBE_2; pfam08402 424182010820 replicative DNA helicase; Provisional; Region: PRK05973 424182010821 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 424182010822 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 424182010823 putative substrate translocation pore; other site 424182010824 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182010825 MarR family; Region: MarR_2; cl17246 424182010826 Transcriptional regulators [Transcription]; Region: MarR; COG1846 424182010827 H+ Antiporter protein; Region: 2A0121; TIGR00900 424182010828 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 424182010829 putative substrate translocation pore; other site 424182010830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182010831 Coenzyme A binding pocket [chemical binding]; other site 424182010832 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 424182010833 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 424182010834 dimer interface [polypeptide binding]; other site 424182010835 active site 424182010836 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 424182010837 catalytic residues [active] 424182010838 substrate binding site [chemical binding]; other site 424182010839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182010840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182010841 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 424182010842 putative effector binding pocket; other site 424182010843 dimerization interface [polypeptide binding]; other site 424182010844 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 424182010845 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 424182010846 putative ligand binding site [chemical binding]; other site 424182010847 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182010848 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 424182010849 TM-ABC transporter signature motif; other site 424182010850 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182010851 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182010852 Walker A/P-loop; other site 424182010853 ATP binding site [chemical binding]; other site 424182010854 Q-loop/lid; other site 424182010855 ABC transporter signature motif; other site 424182010856 Walker B; other site 424182010857 D-loop; other site 424182010858 H-loop/switch region; other site 424182010859 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182010860 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 424182010861 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182010862 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 424182010863 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 424182010864 Protein export membrane protein; Region: SecD_SecF; cl14618 424182010865 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182010866 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182010867 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182010868 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 424182010869 PAS domain; Region: PAS_9; pfam13426 424182010870 putative active site [active] 424182010871 heme pocket [chemical binding]; other site 424182010872 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182010873 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182010874 metal binding site [ion binding]; metal-binding site 424182010875 active site 424182010876 I-site; other site 424182010877 hypothetical protein; Provisional; Region: PRK11171 424182010878 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 424182010879 Cupin domain; Region: Cupin_2; pfam07883 424182010880 Methyltransferase domain; Region: Methyltransf_25; pfam13649 424182010881 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182010882 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182010883 metal binding site [ion binding]; metal-binding site 424182010884 active site 424182010885 I-site; other site 424182010886 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 424182010887 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 424182010888 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182010889 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182010890 DNA binding site [nucleotide binding] 424182010891 domain linker motif; other site 424182010892 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 424182010893 ligand binding site [chemical binding]; other site 424182010894 dimerization interface [polypeptide binding]; other site 424182010895 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 424182010896 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 424182010897 AP (apurinic/apyrimidinic) site pocket; other site 424182010898 DNA interaction; other site 424182010899 Metal-binding active site; metal-binding site 424182010900 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182010901 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182010902 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182010903 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182010904 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 424182010905 DNA interaction; other site 424182010906 Metal-binding active site; metal-binding site 424182010907 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 424182010908 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 424182010909 putative ligand binding site [chemical binding]; other site 424182010910 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 424182010911 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182010912 DNA binding site [nucleotide binding] 424182010913 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 424182010914 putative ligand binding site [chemical binding]; other site 424182010915 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 424182010916 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 424182010917 dimer interface [polypeptide binding]; other site 424182010918 active site 424182010919 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 424182010920 Coenzyme A transferase; Region: CoA_trans; cl17247 424182010921 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 424182010922 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 424182010923 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182010924 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 424182010925 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182010926 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 424182010927 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 424182010928 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 424182010929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182010930 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 424182010931 dimerization interface [polypeptide binding]; other site 424182010932 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 424182010933 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 424182010934 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 424182010935 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 424182010936 active site 424182010937 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 424182010938 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 424182010939 heterodimer interface [polypeptide binding]; other site 424182010940 active site 424182010941 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 424182010942 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 424182010943 tetramer interface [polypeptide binding]; other site 424182010944 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182010945 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010946 dimer interface [polypeptide binding]; other site 424182010947 conserved gate region; other site 424182010948 putative PBP binding loops; other site 424182010949 ABC-ATPase subunit interface; other site 424182010950 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182010951 dimer interface [polypeptide binding]; other site 424182010952 conserved gate region; other site 424182010953 putative PBP binding loops; other site 424182010954 ABC-ATPase subunit interface; other site 424182010955 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182010956 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 424182010957 substrate binding pocket [chemical binding]; other site 424182010958 membrane-bound complex binding site; other site 424182010959 hinge residues; other site 424182010960 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182010961 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182010962 Walker A/P-loop; other site 424182010963 ATP binding site [chemical binding]; other site 424182010964 Q-loop/lid; other site 424182010965 ABC transporter signature motif; other site 424182010966 Walker B; other site 424182010967 D-loop; other site 424182010968 H-loop/switch region; other site 424182010969 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 424182010970 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 424182010971 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 424182010972 shikimate binding site; other site 424182010973 NAD(P) binding site [chemical binding]; other site 424182010974 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 424182010975 Dehydroquinase class II; Region: DHquinase_II; pfam01220 424182010976 trimer interface [polypeptide binding]; other site 424182010977 active site 424182010978 dimer interface [polypeptide binding]; other site 424182010979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182010980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182010981 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182010982 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 424182010983 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 424182010984 dimer interface [polypeptide binding]; other site 424182010985 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 424182010986 active site 424182010987 Fe binding site [ion binding]; other site 424182010988 Uncharacterized conserved protein [Function unknown]; Region: COG1359 424182010989 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182010990 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182010991 Walker A/P-loop; other site 424182010992 ATP binding site [chemical binding]; other site 424182010993 Q-loop/lid; other site 424182010994 ABC transporter signature motif; other site 424182010995 Walker B; other site 424182010996 D-loop; other site 424182010997 H-loop/switch region; other site 424182010998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182010999 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011000 Walker A/P-loop; other site 424182011001 ATP binding site [chemical binding]; other site 424182011002 Q-loop/lid; other site 424182011003 ABC transporter signature motif; other site 424182011004 Walker B; other site 424182011005 D-loop; other site 424182011006 H-loop/switch region; other site 424182011007 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182011008 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011009 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 424182011010 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182011011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011012 dimer interface [polypeptide binding]; other site 424182011013 conserved gate region; other site 424182011014 putative PBP binding loops; other site 424182011015 ABC-ATPase subunit interface; other site 424182011016 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182011017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011018 dimer interface [polypeptide binding]; other site 424182011019 conserved gate region; other site 424182011020 putative PBP binding loops; other site 424182011021 ABC-ATPase subunit interface; other site 424182011022 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 424182011023 putative active site [active] 424182011024 Zn binding site [ion binding]; other site 424182011025 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 424182011026 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 424182011027 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 424182011028 TM-ABC transporter signature motif; other site 424182011029 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 424182011030 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 424182011031 TM-ABC transporter signature motif; other site 424182011032 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182011033 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 424182011034 Walker A/P-loop; other site 424182011035 ATP binding site [chemical binding]; other site 424182011036 Q-loop/lid; other site 424182011037 ABC transporter signature motif; other site 424182011038 Walker B; other site 424182011039 D-loop; other site 424182011040 H-loop/switch region; other site 424182011041 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 424182011042 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 424182011043 Walker A/P-loop; other site 424182011044 ATP binding site [chemical binding]; other site 424182011045 Q-loop/lid; other site 424182011046 ABC transporter signature motif; other site 424182011047 Walker B; other site 424182011048 D-loop; other site 424182011049 H-loop/switch region; other site 424182011050 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 424182011051 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 424182011052 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 424182011053 putative active site [active] 424182011054 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182011055 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 424182011056 substrate binding site [chemical binding]; other site 424182011057 ATP binding site [chemical binding]; other site 424182011058 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 424182011059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 424182011060 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 424182011061 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 424182011062 PYR/PP interface [polypeptide binding]; other site 424182011063 dimer interface [polypeptide binding]; other site 424182011064 TPP binding site [chemical binding]; other site 424182011065 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 424182011066 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 424182011067 TPP-binding site [chemical binding]; other site 424182011068 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182011069 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 424182011070 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182011071 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182011072 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182011073 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 424182011074 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 424182011075 putative ligand binding site [chemical binding]; other site 424182011076 NAD binding site [chemical binding]; other site 424182011077 catalytic site [active] 424182011078 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182011079 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182011080 DNA binding site [nucleotide binding] 424182011081 domain linker motif; other site 424182011082 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 424182011083 putative dimerization interface [polypeptide binding]; other site 424182011084 putative ligand binding site [chemical binding]; other site 424182011085 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182011086 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 424182011087 putative DNA binding site [nucleotide binding]; other site 424182011088 putative Zn2+ binding site [ion binding]; other site 424182011089 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 424182011090 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 424182011091 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 424182011092 P-loop, Walker A motif; other site 424182011093 Base recognition motif; other site 424182011094 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 424182011095 FOG: WD40 repeat [General function prediction only]; Region: COG2319 424182011096 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 424182011097 structural tetrad; other site 424182011098 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 424182011099 structural tetrad; other site 424182011100 sugar efflux transporter; Region: 2A0120; TIGR00899 424182011101 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 424182011102 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 424182011103 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 424182011104 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 424182011105 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 424182011106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 424182011107 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 424182011108 putative metal binding site [ion binding]; other site 424182011109 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 424182011110 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 424182011111 active site 424182011112 intersubunit interface [polypeptide binding]; other site 424182011113 catalytic residue [active] 424182011114 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 424182011115 putative active site [active] 424182011116 putative metal binding residues [ion binding]; other site 424182011117 signature motif; other site 424182011118 putative dimer interface [polypeptide binding]; other site 424182011119 putative phosphate binding site [ion binding]; other site 424182011120 CHAD domain; Region: CHAD; pfam05235 424182011121 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 424182011122 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 424182011123 active site residue [active] 424182011124 CHASE4 domain; Region: CHASE4; pfam05228 424182011125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182011126 metal binding site [ion binding]; metal-binding site 424182011127 active site 424182011128 I-site; other site 424182011129 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 424182011130 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 424182011131 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 424182011132 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011133 dimer interface [polypeptide binding]; other site 424182011134 conserved gate region; other site 424182011135 ABC-ATPase subunit interface; other site 424182011136 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 424182011137 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 424182011138 Walker A/P-loop; other site 424182011139 ATP binding site [chemical binding]; other site 424182011140 Q-loop/lid; other site 424182011141 ABC transporter signature motif; other site 424182011142 Walker B; other site 424182011143 D-loop; other site 424182011144 H-loop/switch region; other site 424182011145 NIL domain; Region: NIL; pfam09383 424182011146 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 424182011147 dimer interface [polypeptide binding]; other site 424182011148 FMN binding site [chemical binding]; other site 424182011149 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 424182011150 beta-galactosidase; Region: BGL; TIGR03356 424182011151 xylose isomerase; Provisional; Region: PRK05474 424182011152 xylose isomerase; Region: xylose_isom_A; TIGR02630 424182011153 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 424182011154 N- and C-terminal domain interface [polypeptide binding]; other site 424182011155 D-xylulose kinase; Region: XylB; TIGR01312 424182011156 active site 424182011157 MgATP binding site [chemical binding]; other site 424182011158 catalytic site [active] 424182011159 metal binding site [ion binding]; metal-binding site 424182011160 xylulose binding site [chemical binding]; other site 424182011161 homodimer interface [polypeptide binding]; other site 424182011162 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182011163 DNA binding site [nucleotide binding] 424182011164 domain linker motif; other site 424182011165 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 424182011166 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182011167 putative ligand binding site [chemical binding]; other site 424182011168 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 424182011169 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 424182011170 putative substrate translocation pore; other site 424182011171 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 424182011172 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 424182011173 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182011174 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182011175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182011176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182011177 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 424182011178 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 424182011179 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 424182011180 transmembrane helices; other site 424182011181 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 424182011182 TrkA-C domain; Region: TrkA_C; pfam02080 424182011183 TrkA-C domain; Region: TrkA_C; pfam02080 424182011184 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 424182011185 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 424182011186 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 424182011187 HIGH motif; other site 424182011188 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 424182011189 active site 424182011190 KMSKS motif; other site 424182011191 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 424182011192 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 424182011193 dimer interface [polypeptide binding]; other site 424182011194 putative anticodon binding site; other site 424182011195 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 424182011196 motif 1; other site 424182011197 active site 424182011198 motif 2; other site 424182011199 motif 3; other site 424182011200 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 424182011201 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 424182011202 metal binding site [ion binding]; metal-binding site 424182011203 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 424182011204 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 424182011205 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 424182011206 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 424182011207 ABC-ATPase subunit interface; other site 424182011208 dimer interface [polypeptide binding]; other site 424182011209 putative PBP binding regions; other site 424182011210 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 424182011211 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 424182011212 ABC-ATPase subunit interface; other site 424182011213 dimer interface [polypeptide binding]; other site 424182011214 putative PBP binding regions; other site 424182011215 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182011216 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 424182011217 NAD binding site [chemical binding]; other site 424182011218 homotetramer interface [polypeptide binding]; other site 424182011219 homodimer interface [polypeptide binding]; other site 424182011220 active site 424182011221 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182011222 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 424182011223 putative DNA binding site [nucleotide binding]; other site 424182011224 putative Zn2+ binding site [ion binding]; other site 424182011225 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182011226 transaldolase-like protein; Provisional; Region: PTZ00411 424182011227 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 424182011228 active site 424182011229 dimer interface [polypeptide binding]; other site 424182011230 catalytic residue [active] 424182011231 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 424182011232 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 424182011233 non-specific DNA binding site [nucleotide binding]; other site 424182011234 salt bridge; other site 424182011235 sequence-specific DNA binding site [nucleotide binding]; other site 424182011236 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 424182011237 Helix-turn-helix domain; Region: HTH_18; pfam12833 424182011238 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 424182011239 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 424182011240 DNA binding site [nucleotide binding] 424182011241 active site 424182011242 Integral membrane protein [Function unknown]; Region: COG5488 424182011243 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 424182011244 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 424182011245 minor groove reading motif; other site 424182011246 helix-hairpin-helix signature motif; other site 424182011247 substrate binding pocket [chemical binding]; other site 424182011248 active site 424182011249 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 424182011250 CysZ-like protein; Reviewed; Region: PRK12768 424182011251 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 424182011252 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 424182011253 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 424182011254 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 424182011255 N- and C-terminal domain interface [polypeptide binding]; other site 424182011256 active site 424182011257 MgATP binding site [chemical binding]; other site 424182011258 catalytic site [active] 424182011259 metal binding site [ion binding]; metal-binding site 424182011260 carbohydrate binding site [chemical binding]; other site 424182011261 putative homodimer interface [polypeptide binding]; other site 424182011262 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 424182011263 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 424182011264 motif II; other site 424182011265 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 424182011266 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 424182011267 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 424182011268 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182011269 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182011270 Walker A/P-loop; other site 424182011271 ATP binding site [chemical binding]; other site 424182011272 Q-loop/lid; other site 424182011273 ABC transporter signature motif; other site 424182011274 Walker B; other site 424182011275 D-loop; other site 424182011276 H-loop/switch region; other site 424182011277 TOBE domain; Region: TOBE_2; pfam08402 424182011278 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182011279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011280 dimer interface [polypeptide binding]; other site 424182011281 conserved gate region; other site 424182011282 putative PBP binding loops; other site 424182011283 ABC-ATPase subunit interface; other site 424182011284 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182011285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011286 putative PBP binding loops; other site 424182011287 ABC-ATPase subunit interface; other site 424182011288 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182011289 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182011290 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 424182011291 MarR family; Region: MarR_2; pfam12802 424182011292 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 424182011293 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182011294 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011295 Walker A/P-loop; other site 424182011296 ATP binding site [chemical binding]; other site 424182011297 Q-loop/lid; other site 424182011298 ABC transporter signature motif; other site 424182011299 Walker B; other site 424182011300 D-loop; other site 424182011301 H-loop/switch region; other site 424182011302 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182011303 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011304 Walker A/P-loop; other site 424182011305 ATP binding site [chemical binding]; other site 424182011306 Q-loop/lid; other site 424182011307 ABC transporter signature motif; other site 424182011308 Walker B; other site 424182011309 D-loop; other site 424182011310 H-loop/switch region; other site 424182011311 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182011312 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182011313 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 424182011314 metal binding site [ion binding]; metal-binding site 424182011315 putative dimer interface [polypeptide binding]; other site 424182011316 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011317 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 424182011318 peptide binding site [polypeptide binding]; other site 424182011319 dimer interface [polypeptide binding]; other site 424182011320 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182011321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011322 dimer interface [polypeptide binding]; other site 424182011323 conserved gate region; other site 424182011324 putative PBP binding loops; other site 424182011325 ABC-ATPase subunit interface; other site 424182011326 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 424182011327 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182011328 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011329 dimer interface [polypeptide binding]; other site 424182011330 conserved gate region; other site 424182011331 putative PBP binding loops; other site 424182011332 ABC-ATPase subunit interface; other site 424182011333 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 424182011334 intracellular protease, PfpI family; Region: PfpI; TIGR01382 424182011335 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 424182011336 conserved cys residue [active] 424182011337 amidase; Provisional; Region: PRK07042 424182011338 Amidase; Region: Amidase; cl11426 424182011339 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182011340 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011341 dimer interface [polypeptide binding]; other site 424182011342 conserved gate region; other site 424182011343 putative PBP binding loops; other site 424182011344 ABC-ATPase subunit interface; other site 424182011345 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182011346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011347 dimer interface [polypeptide binding]; other site 424182011348 conserved gate region; other site 424182011349 putative PBP binding loops; other site 424182011350 ABC-ATPase subunit interface; other site 424182011351 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011352 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 424182011353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182011354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182011355 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_5; cd08426 424182011356 putative dimerization interface [polypeptide binding]; other site 424182011357 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182011358 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011359 Walker A/P-loop; other site 424182011360 ATP binding site [chemical binding]; other site 424182011361 Q-loop/lid; other site 424182011362 ABC transporter signature motif; other site 424182011363 Walker B; other site 424182011364 D-loop; other site 424182011365 H-loop/switch region; other site 424182011366 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182011367 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011368 Walker A/P-loop; other site 424182011369 ATP binding site [chemical binding]; other site 424182011370 Q-loop/lid; other site 424182011371 ABC transporter signature motif; other site 424182011372 Walker B; other site 424182011373 D-loop; other site 424182011374 H-loop/switch region; other site 424182011375 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182011376 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 424182011377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011378 dimer interface [polypeptide binding]; other site 424182011379 ABC-ATPase subunit interface; other site 424182011380 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182011381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011382 dimer interface [polypeptide binding]; other site 424182011383 conserved gate region; other site 424182011384 putative PBP binding loops; other site 424182011385 ABC-ATPase subunit interface; other site 424182011386 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011387 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 424182011388 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 424182011389 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 424182011390 active site 424182011391 dimer interface [polypeptide binding]; other site 424182011392 phosphoribosyltransferase; Provisional; Region: PRK06031 424182011393 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182011394 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 424182011395 metal binding site [ion binding]; metal-binding site 424182011396 putative dimer interface [polypeptide binding]; other site 424182011397 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 424182011398 replicative DNA helicase; Provisional; Region: PRK05973 424182011399 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 424182011400 replicative DNA helicase; Provisional; Region: PRK05973 424182011401 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 424182011402 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 424182011403 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 424182011404 active site 424182011405 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 424182011406 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 424182011407 active site 424182011408 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182011409 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182011410 Walker A/P-loop; other site 424182011411 ATP binding site [chemical binding]; other site 424182011412 Q-loop/lid; other site 424182011413 ABC transporter signature motif; other site 424182011414 Walker B; other site 424182011415 D-loop; other site 424182011416 H-loop/switch region; other site 424182011417 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182011418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011419 dimer interface [polypeptide binding]; other site 424182011420 conserved gate region; other site 424182011421 putative PBP binding loops; other site 424182011422 ABC-ATPase subunit interface; other site 424182011423 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 424182011424 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011425 dimer interface [polypeptide binding]; other site 424182011426 conserved gate region; other site 424182011427 putative PBP binding loops; other site 424182011428 ABC-ATPase subunit interface; other site 424182011429 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 424182011430 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182011431 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182011432 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182011433 DNA binding site [nucleotide binding] 424182011434 domain linker motif; other site 424182011435 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 424182011436 dimerization interface [polypeptide binding]; other site 424182011437 ligand binding site [chemical binding]; other site 424182011438 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182011439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182011440 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 424182011441 dimerization interface [polypeptide binding]; other site 424182011442 substrate binding pocket [chemical binding]; other site 424182011443 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 424182011444 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 424182011445 FAD binding site [chemical binding]; other site 424182011446 substrate binding pocket [chemical binding]; other site 424182011447 catalytic base [active] 424182011448 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 424182011449 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 424182011450 N-terminal plug; other site 424182011451 ligand-binding site [chemical binding]; other site 424182011452 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 424182011453 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182011454 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182011455 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 424182011456 active site 424182011457 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 424182011458 non-prolyl cis peptide bond; other site 424182011459 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 424182011460 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 424182011461 Walker A/P-loop; other site 424182011462 ATP binding site [chemical binding]; other site 424182011463 Q-loop/lid; other site 424182011464 ABC transporter signature motif; other site 424182011465 Walker B; other site 424182011466 D-loop; other site 424182011467 H-loop/switch region; other site 424182011468 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 424182011469 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 424182011470 ABC-ATPase subunit interface; other site 424182011471 dimer interface [polypeptide binding]; other site 424182011472 putative PBP binding regions; other site 424182011473 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 424182011474 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 424182011475 ABC-ATPase subunit interface; other site 424182011476 dimer interface [polypeptide binding]; other site 424182011477 putative PBP binding regions; other site 424182011478 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 424182011479 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 424182011480 intersubunit interface [polypeptide binding]; other site 424182011481 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 424182011482 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 424182011483 FAD binding pocket [chemical binding]; other site 424182011484 FAD binding motif [chemical binding]; other site 424182011485 phosphate binding motif [ion binding]; other site 424182011486 NAD binding pocket [chemical binding]; other site 424182011487 Phosphopantetheine attachment site; Region: PP-binding; cl09936 424182011488 Condensation domain; Region: Condensation; pfam00668 424182011489 Condensation domain; Region: Condensation; pfam00668 424182011490 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 424182011491 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 424182011492 Condensation domain; Region: Condensation; pfam00668 424182011493 Condensation domain; Region: Condensation; pfam00668 424182011494 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 424182011495 Nonribosomal peptide synthase; Region: NRPS; pfam08415 424182011496 Condensation domain; Region: Condensation; pfam00668 424182011497 Nonribosomal peptide synthase; Region: NRPS; pfam08415 424182011498 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 424182011499 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 424182011500 acyl-activating enzyme (AAE) consensus motif; other site 424182011501 AMP binding site [chemical binding]; other site 424182011502 isochorismate synthase DhbC; Validated; Region: PRK06923 424182011503 chorismate binding enzyme; Region: Chorismate_bind; cl10555 424182011504 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 424182011505 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 424182011506 acyl-activating enzyme (AAE) consensus motif; other site 424182011507 active site 424182011508 AMP binding site [chemical binding]; other site 424182011509 substrate binding site [chemical binding]; other site 424182011510 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 424182011511 hydrophobic substrate binding pocket; other site 424182011512 Isochorismatase family; Region: Isochorismatase; pfam00857 424182011513 active site 424182011514 conserved cis-peptide bond; other site 424182011515 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 424182011516 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 424182011517 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 424182011518 putative NAD(P) binding site [chemical binding]; other site 424182011519 active site 424182011520 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 424182011521 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 424182011522 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 424182011523 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182011524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182011525 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 424182011526 putative effector binding pocket; other site 424182011527 putative dimerization interface [polypeptide binding]; other site 424182011528 short chain dehydrogenase; Provisional; Region: PRK06500 424182011529 classical (c) SDRs; Region: SDR_c; cd05233 424182011530 NAD(P) binding site [chemical binding]; other site 424182011531 active site 424182011532 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 424182011533 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182011534 Walker A/P-loop; other site 424182011535 ATP binding site [chemical binding]; other site 424182011536 ABC transporter signature motif; other site 424182011537 Walker B; other site 424182011538 D-loop; other site 424182011539 H-loop/switch region; other site 424182011540 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182011541 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 424182011542 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 424182011543 dimer interface [polypeptide binding]; other site 424182011544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182011545 catalytic residue [active] 424182011546 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 424182011547 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 424182011548 active site 424182011549 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 424182011550 active site residue [active] 424182011551 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 424182011552 active site residue [active] 424182011553 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 424182011554 active site residue [active] 424182011555 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011556 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 424182011557 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 424182011558 dimer interface [polypeptide binding]; other site 424182011559 FMN binding site [chemical binding]; other site 424182011560 NADPH bind site [chemical binding]; other site 424182011561 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 424182011562 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 424182011563 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 424182011564 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182011565 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182011566 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 424182011567 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 424182011568 putative catalytic residue [active] 424182011569 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 424182011570 FAD binding domain; Region: FAD_binding_4; pfam01565 424182011571 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 424182011572 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 424182011573 molybdopterin cofactor binding site [chemical binding]; other site 424182011574 substrate binding site [chemical binding]; other site 424182011575 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 424182011576 molybdopterin cofactor binding site; other site 424182011577 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011578 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_15; cd08492 424182011579 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182011580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011581 dimer interface [polypeptide binding]; other site 424182011582 conserved gate region; other site 424182011583 putative PBP binding loops; other site 424182011584 ABC-ATPase subunit interface; other site 424182011585 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 424182011586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011587 dimer interface [polypeptide binding]; other site 424182011588 conserved gate region; other site 424182011589 putative PBP binding loops; other site 424182011590 ABC-ATPase subunit interface; other site 424182011591 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182011592 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011593 Walker A/P-loop; other site 424182011594 ATP binding site [chemical binding]; other site 424182011595 Q-loop/lid; other site 424182011596 ABC transporter signature motif; other site 424182011597 Walker B; other site 424182011598 D-loop; other site 424182011599 H-loop/switch region; other site 424182011600 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011601 Walker A/P-loop; other site 424182011602 ATP binding site [chemical binding]; other site 424182011603 Q-loop/lid; other site 424182011604 ABC transporter signature motif; other site 424182011605 Walker B; other site 424182011606 D-loop; other site 424182011607 H-loop/switch region; other site 424182011608 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182011609 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 424182011610 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 424182011611 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 424182011612 active site 424182011613 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 424182011614 dimer interface [polypeptide binding]; other site 424182011615 non-prolyl cis peptide bond; other site 424182011616 insertion regions; other site 424182011617 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 424182011618 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 424182011619 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 424182011620 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 424182011621 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 424182011622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182011623 short chain dehydrogenase; Provisional; Region: PRK12747 424182011624 NAD(P) binding site [chemical binding]; other site 424182011625 active site 424182011626 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182011627 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182011628 Uncharacterized conserved protein [Function unknown]; Region: COG1801 424182011629 succinic semialdehyde dehydrogenase; Region: PLN02278 424182011630 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 424182011631 tetramerization interface [polypeptide binding]; other site 424182011632 NAD(P) binding site [chemical binding]; other site 424182011633 catalytic residues [active] 424182011634 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 424182011635 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 424182011636 Cytochrome c2 [Energy production and conversion]; Region: COG3474 424182011637 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 424182011638 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 424182011639 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 424182011640 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 424182011641 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182011642 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182011643 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182011644 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182011645 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182011646 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 424182011647 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182011648 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182011649 DNA binding site [nucleotide binding] 424182011650 domain linker motif; other site 424182011651 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 424182011652 dimerization interface [polypeptide binding]; other site 424182011653 ligand binding site [chemical binding]; other site 424182011654 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182011655 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 424182011656 TM-ABC transporter signature motif; other site 424182011657 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182011658 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 424182011659 TM-ABC transporter signature motif; other site 424182011660 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182011661 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182011662 Walker A/P-loop; other site 424182011663 ATP binding site [chemical binding]; other site 424182011664 Q-loop/lid; other site 424182011665 ABC transporter signature motif; other site 424182011666 Walker B; other site 424182011667 D-loop; other site 424182011668 H-loop/switch region; other site 424182011669 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182011670 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 424182011671 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182011672 putative ligand binding site [chemical binding]; other site 424182011673 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 424182011674 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 424182011675 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 424182011676 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 424182011677 putative active site [active] 424182011678 putative substrate binding site [chemical binding]; other site 424182011679 putative cosubstrate binding site; other site 424182011680 catalytic site [active] 424182011681 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 424182011682 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 424182011683 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 424182011684 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182011685 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 424182011686 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 424182011687 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 424182011688 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 424182011689 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 424182011690 conserved cys residue [active] 424182011691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182011692 Predicted integral membrane protein [Function unknown]; Region: COG5473 424182011693 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 424182011694 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 424182011695 nucleotide binding site [chemical binding]; other site 424182011696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182011697 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 424182011698 Predicted dehydrogenase [General function prediction only]; Region: COG0579 424182011699 hydroxyglutarate oxidase; Provisional; Region: PRK11728 424182011700 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 424182011701 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182011702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011703 dimer interface [polypeptide binding]; other site 424182011704 conserved gate region; other site 424182011705 putative PBP binding loops; other site 424182011706 ABC-ATPase subunit interface; other site 424182011707 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182011708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011709 putative PBP binding loops; other site 424182011710 dimer interface [polypeptide binding]; other site 424182011711 ABC-ATPase subunit interface; other site 424182011712 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182011713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182011714 Walker A/P-loop; other site 424182011715 ATP binding site [chemical binding]; other site 424182011716 Q-loop/lid; other site 424182011717 ABC transporter signature motif; other site 424182011718 Walker B; other site 424182011719 D-loop; other site 424182011720 H-loop/switch region; other site 424182011721 TOBE domain; Region: TOBE_2; pfam08402 424182011722 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 424182011723 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182011724 hypothetical protein; Validated; Region: PRK06201 424182011725 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 424182011726 nitrilase; Region: PLN02798 424182011727 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 424182011728 putative active site [active] 424182011729 catalytic triad [active] 424182011730 dimer interface [polypeptide binding]; other site 424182011731 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182011732 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182011733 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 424182011734 dimerization interface [polypeptide binding]; other site 424182011735 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 424182011736 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 424182011737 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 424182011738 putative active site [active] 424182011739 heme pocket [chemical binding]; other site 424182011740 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 424182011741 putative active site [active] 424182011742 heme pocket [chemical binding]; other site 424182011743 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182011744 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 424182011745 DNA binding residues [nucleotide binding] 424182011746 dimerization interface [polypeptide binding]; other site 424182011747 CsbD-like; Region: CsbD; pfam05532 424182011748 BON domain; Region: BON; pfam04972 424182011749 Protein of unknown function (DUF992); Region: DUF992; pfam06186 424182011750 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182011751 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 424182011752 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 424182011753 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 424182011754 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 424182011755 Coenzyme A binding pocket [chemical binding]; other site 424182011756 hypothetical protein; Provisional; Region: PRK05965 424182011757 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 424182011758 inhibitor-cofactor binding pocket; inhibition site 424182011759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182011760 catalytic residue [active] 424182011761 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 424182011762 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 424182011763 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011764 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 424182011765 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182011766 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011767 dimer interface [polypeptide binding]; other site 424182011768 conserved gate region; other site 424182011769 putative PBP binding loops; other site 424182011770 ABC-ATPase subunit interface; other site 424182011771 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182011772 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011773 dimer interface [polypeptide binding]; other site 424182011774 conserved gate region; other site 424182011775 ABC-ATPase subunit interface; other site 424182011776 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182011777 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011778 Walker A/P-loop; other site 424182011779 ATP binding site [chemical binding]; other site 424182011780 Q-loop/lid; other site 424182011781 ABC transporter signature motif; other site 424182011782 Walker B; other site 424182011783 D-loop; other site 424182011784 H-loop/switch region; other site 424182011785 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182011786 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011787 Walker A/P-loop; other site 424182011788 ATP binding site [chemical binding]; other site 424182011789 Q-loop/lid; other site 424182011790 ABC transporter signature motif; other site 424182011791 Walker B; other site 424182011792 D-loop; other site 424182011793 H-loop/switch region; other site 424182011794 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182011795 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182011796 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 424182011797 putative DNA binding site [nucleotide binding]; other site 424182011798 putative Zn2+ binding site [ion binding]; other site 424182011799 AsnC family; Region: AsnC_trans_reg; pfam01037 424182011800 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182011801 hydroxyglutarate oxidase; Provisional; Region: PRK11728 424182011802 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 424182011803 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182011804 substrate binding pocket [chemical binding]; other site 424182011805 membrane-bound complex binding site; other site 424182011806 hinge residues; other site 424182011807 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 424182011808 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182011809 substrate binding pocket [chemical binding]; other site 424182011810 membrane-bound complex binding site; other site 424182011811 hinge residues; other site 424182011812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011813 dimer interface [polypeptide binding]; other site 424182011814 conserved gate region; other site 424182011815 putative PBP binding loops; other site 424182011816 ABC-ATPase subunit interface; other site 424182011817 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182011818 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182011819 Walker A/P-loop; other site 424182011820 ATP binding site [chemical binding]; other site 424182011821 Q-loop/lid; other site 424182011822 ABC transporter signature motif; other site 424182011823 Walker B; other site 424182011824 D-loop; other site 424182011825 H-loop/switch region; other site 424182011826 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182011827 Coenzyme A binding pocket [chemical binding]; other site 424182011828 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182011829 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 424182011830 metal binding site [ion binding]; metal-binding site 424182011831 putative dimer interface [polypeptide binding]; other site 424182011832 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 424182011833 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 424182011834 active site 424182011835 non-prolyl cis peptide bond; other site 424182011836 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 424182011837 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 424182011838 Rrf2 family protein; Region: rrf2_super; TIGR00738 424182011839 Transcriptional regulator; Region: Rrf2; pfam02082 424182011840 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 424182011841 active site 424182011842 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 424182011843 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 424182011844 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 424182011845 active site 424182011846 dimer interface [polypeptide binding]; other site 424182011847 non-prolyl cis peptide bond; other site 424182011848 insertion regions; other site 424182011849 Serine hydrolase; Region: Ser_hydrolase; pfam06821 424182011850 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182011851 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 424182011852 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 424182011853 active site 424182011854 dimer interface [polypeptide binding]; other site 424182011855 non-prolyl cis peptide bond; other site 424182011856 insertion regions; other site 424182011857 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 424182011858 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 424182011859 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 424182011860 active site 424182011861 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182011862 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011863 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 424182011864 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182011865 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011866 dimer interface [polypeptide binding]; other site 424182011867 conserved gate region; other site 424182011868 putative PBP binding loops; other site 424182011869 ABC-ATPase subunit interface; other site 424182011870 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182011871 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011872 dimer interface [polypeptide binding]; other site 424182011873 conserved gate region; other site 424182011874 putative PBP binding loops; other site 424182011875 ABC-ATPase subunit interface; other site 424182011876 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 424182011877 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011878 Walker A/P-loop; other site 424182011879 ATP binding site [chemical binding]; other site 424182011880 Q-loop/lid; other site 424182011881 ABC transporter signature motif; other site 424182011882 Walker B; other site 424182011883 D-loop; other site 424182011884 H-loop/switch region; other site 424182011885 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182011886 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 424182011887 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011888 Walker A/P-loop; other site 424182011889 ATP binding site [chemical binding]; other site 424182011890 Q-loop/lid; other site 424182011891 ABC transporter signature motif; other site 424182011892 Walker B; other site 424182011893 D-loop; other site 424182011894 H-loop/switch region; other site 424182011895 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182011896 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 424182011897 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182011898 active site 424182011899 catalytic tetrad [active] 424182011900 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 424182011901 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 424182011902 Flavin binding site [chemical binding]; other site 424182011903 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182011904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182011905 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 424182011906 dimerization interface [polypeptide binding]; other site 424182011907 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 424182011908 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 424182011909 active site 424182011910 non-prolyl cis peptide bond; other site 424182011911 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011912 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 424182011913 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 424182011914 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011915 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 424182011916 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182011917 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 424182011918 metal binding site [ion binding]; metal-binding site 424182011919 putative dimer interface [polypeptide binding]; other site 424182011920 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 424182011921 active site 424182011922 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 424182011923 dimer interface [polypeptide binding]; other site 424182011924 non-prolyl cis peptide bond; other site 424182011925 insertion regions; other site 424182011926 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 424182011927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182011928 NAD(P) binding site [chemical binding]; other site 424182011929 active site 424182011930 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182011931 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 424182011932 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 424182011933 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 424182011934 active site 424182011935 non-prolyl cis peptide bond; other site 424182011936 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 424182011937 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 424182011938 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 424182011939 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. 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...; Region: MR_like_4; cd03329 424182011940 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182011941 putative active site pocket [active] 424182011942 metal binding site [ion binding]; metal-binding site 424182011943 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 424182011944 active site 424182011945 catalytic triad [active] 424182011946 oxyanion hole [active] 424182011947 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182011948 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 424182011949 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182011950 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011951 Walker A/P-loop; other site 424182011952 ATP binding site [chemical binding]; other site 424182011953 Q-loop/lid; other site 424182011954 ABC transporter signature motif; other site 424182011955 Walker B; other site 424182011956 D-loop; other site 424182011957 H-loop/switch region; other site 424182011958 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182011959 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182011960 Walker A/P-loop; other site 424182011961 ATP binding site [chemical binding]; other site 424182011962 Q-loop/lid; other site 424182011963 ABC transporter signature motif; other site 424182011964 Walker B; other site 424182011965 D-loop; other site 424182011966 H-loop/switch region; other site 424182011967 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182011968 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182011969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011970 dimer interface [polypeptide binding]; other site 424182011971 conserved gate region; other site 424182011972 ABC-ATPase subunit interface; other site 424182011973 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182011974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182011975 dimer interface [polypeptide binding]; other site 424182011976 conserved gate region; other site 424182011977 putative PBP binding loops; other site 424182011978 ABC-ATPase subunit interface; other site 424182011979 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 424182011980 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182011981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182011982 DNA-binding site [nucleotide binding]; DNA binding site 424182011983 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182011984 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 424182011985 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 424182011986 conserved cys residue [active] 424182011987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182011988 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182011989 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182011990 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182011991 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 424182011992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182011993 NAD(P) binding site [chemical binding]; other site 424182011994 active site 424182011995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 424182011996 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 424182011997 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 424182011998 dimerization interface [polypeptide binding]; other site 424182011999 putative DNA binding site [nucleotide binding]; other site 424182012000 putative Zn2+ binding site [ion binding]; other site 424182012001 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 424182012002 Predicted transporter component [General function prediction only]; Region: COG2391 424182012003 Predicted transporter component [General function prediction only]; Region: COG2391 424182012004 Sulphur transport; Region: Sulf_transp; pfam04143 424182012005 phosphoglyceromutase; Provisional; Region: PRK05434 424182012006 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 424182012007 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 424182012008 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 424182012009 E3 interaction surface; other site 424182012010 lipoyl attachment site [posttranslational modification]; other site 424182012011 e3 binding domain; Region: E3_binding; pfam02817 424182012012 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 424182012013 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 424182012014 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 424182012015 alpha subunit interface [polypeptide binding]; other site 424182012016 TPP binding site [chemical binding]; other site 424182012017 heterodimer interface [polypeptide binding]; other site 424182012018 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 424182012019 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 424182012020 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 424182012021 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 424182012022 tetramer interface [polypeptide binding]; other site 424182012023 TPP-binding site [chemical binding]; other site 424182012024 heterodimer interface [polypeptide binding]; other site 424182012025 phosphorylation loop region [posttranslational modification] 424182012026 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 424182012027 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 424182012028 active site 424182012029 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182012030 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 424182012031 putative DNA binding site [nucleotide binding]; other site 424182012032 putative Zn2+ binding site [ion binding]; other site 424182012033 AsnC family; Region: AsnC_trans_reg; pfam01037 424182012034 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 424182012035 isovaleryl-CoA dehydrogenase; Region: PLN02519 424182012036 substrate binding site [chemical binding]; other site 424182012037 FAD binding site [chemical binding]; other site 424182012038 catalytic base [active] 424182012039 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 424182012040 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 424182012041 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 424182012042 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 424182012043 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 424182012044 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 424182012045 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 424182012046 carboxyltransferase (CT) interaction site; other site 424182012047 biotinylation site [posttranslational modification]; other site 424182012048 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 424182012049 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 424182012050 active site 424182012051 catalytic residues [active] 424182012052 metal binding site [ion binding]; metal-binding site 424182012053 enoyl-CoA hydratase; Provisional; Region: PRK05995 424182012054 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 424182012055 substrate binding site [chemical binding]; other site 424182012056 oxyanion hole (OAH) forming residues; other site 424182012057 trimer interface [polypeptide binding]; other site 424182012058 pantoate--beta-alanine ligase; Region: panC; TIGR00018 424182012059 Pantoate-beta-alanine ligase; Region: PanC; cd00560 424182012060 active site 424182012061 ATP-binding site [chemical binding]; other site 424182012062 pantoate-binding site; other site 424182012063 HXXH motif; other site 424182012064 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 424182012065 active site 424182012066 oligomerization interface [polypeptide binding]; other site 424182012067 metal binding site [ion binding]; metal-binding site 424182012068 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 424182012069 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 424182012070 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase; Region: RhaD_aldol-ADH; TIGR02632 424182012071 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 424182012072 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 424182012073 putative NAD(P) binding site [chemical binding]; other site 424182012074 active site 424182012075 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 424182012076 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 424182012077 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 424182012078 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 424182012079 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 424182012080 ligand binding site [chemical binding]; other site 424182012081 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182012082 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182012083 Walker A/P-loop; other site 424182012084 ATP binding site [chemical binding]; other site 424182012085 Q-loop/lid; other site 424182012086 ABC transporter signature motif; other site 424182012087 Walker B; other site 424182012088 D-loop; other site 424182012089 H-loop/switch region; other site 424182012090 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182012091 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182012092 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 424182012093 TM-ABC transporter signature motif; other site 424182012094 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 424182012095 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182012096 TM-ABC transporter signature motif; other site 424182012097 Domain of unknown function (DUF718); Region: DUF718; pfam05336 424182012098 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 424182012099 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 424182012100 N- and C-terminal domain interface [polypeptide binding]; other site 424182012101 putative active site [active] 424182012102 putative MgATP binding site [chemical binding]; other site 424182012103 putative catalytic site [active] 424182012104 metal binding site [ion binding]; metal-binding site 424182012105 putative carbohydrate binding site [chemical binding]; other site 424182012106 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182012107 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182012108 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182012109 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 424182012110 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182012111 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182012112 metal binding site [ion binding]; metal-binding site 424182012113 active site 424182012114 I-site; other site 424182012115 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 424182012116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3915 424182012117 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182012118 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 424182012119 tetramerization interface [polypeptide binding]; other site 424182012120 NAD(P) binding site [chemical binding]; other site 424182012121 catalytic residues [active] 424182012122 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 424182012123 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 424182012124 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 424182012125 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 424182012126 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 424182012127 Walker A/P-loop; other site 424182012128 ATP binding site [chemical binding]; other site 424182012129 Q-loop/lid; other site 424182012130 ABC transporter signature motif; other site 424182012131 Walker B; other site 424182012132 D-loop; other site 424182012133 H-loop/switch region; other site 424182012134 sulfate transport protein; Provisional; Region: cysT; CHL00187 424182012135 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182012136 dimer interface [polypeptide binding]; other site 424182012137 conserved gate region; other site 424182012138 putative PBP binding loops; other site 424182012139 ABC-ATPase subunit interface; other site 424182012140 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 424182012141 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182012142 dimer interface [polypeptide binding]; other site 424182012143 conserved gate region; other site 424182012144 putative PBP binding loops; other site 424182012145 ABC-ATPase subunit interface; other site 424182012146 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 424182012147 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 424182012148 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 424182012149 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 424182012150 substrate binding site [chemical binding]; other site 424182012151 oxyanion hole (OAH) forming residues; other site 424182012152 trimer interface [polypeptide binding]; other site 424182012153 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 424182012154 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 424182012155 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 424182012156 Bacterial SH3 domain; Region: SH3_3; pfam08239 424182012157 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 424182012158 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 424182012159 S-adenosylmethionine binding site [chemical binding]; other site 424182012160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 424182012161 Predicted amidohydrolase [General function prediction only]; Region: COG0388 424182012162 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 424182012163 putative active site [active] 424182012164 catalytic triad [active] 424182012165 dimer interface [polypeptide binding]; other site 424182012166 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 424182012167 GSH binding site [chemical binding]; other site 424182012168 catalytic residues [active] 424182012169 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 424182012170 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 424182012171 active site 424182012172 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 424182012173 Methyltransferase domain; Region: Methyltransf_11; pfam08241 424182012174 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 424182012175 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 424182012176 active site 424182012177 8-oxo-dGMP binding site [chemical binding]; other site 424182012178 nudix motif; other site 424182012179 metal binding site [ion binding]; metal-binding site 424182012180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182012181 Coenzyme A binding pocket [chemical binding]; other site 424182012182 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 424182012183 heterotetramer interface [polypeptide binding]; other site 424182012184 active site pocket [active] 424182012185 cleavage site 424182012186 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 424182012187 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 424182012188 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 424182012189 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 424182012190 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 424182012191 SEC-C motif; Region: SEC-C; pfam02810 424182012192 EamA-like transporter family; Region: EamA; pfam00892 424182012193 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 424182012194 Acyltransferase family; Region: Acyl_transf_3; pfam01757 424182012195 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 424182012196 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 424182012197 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 424182012198 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 424182012199 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 424182012200 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 424182012201 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 424182012202 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 424182012203 active site 424182012204 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 424182012205 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 424182012206 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 424182012207 active site 424182012208 metal binding site [ion binding]; metal-binding site 424182012209 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 424182012210 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 424182012211 active site 424182012212 colanic acid exporter; Provisional; Region: PRK10459 424182012213 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 424182012214 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182012215 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 424182012216 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 424182012217 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 424182012218 Chain length determinant protein; Region: Wzz; cl15801 424182012219 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 424182012220 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 424182012221 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 424182012222 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182012223 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 424182012224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182012225 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 424182012226 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 424182012227 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182012228 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; cl01053 424182012229 catalytic triad [active] 424182012230 O-Antigen ligase; Region: Wzy_C; pfam04932 424182012231 transcription elongation factor regulatory protein; Validated; Region: PRK06342 424182012232 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 424182012233 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 424182012234 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 424182012235 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 424182012236 active site 424182012237 catalytic residues [active] 424182012238 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182012239 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 424182012240 AP (apurinic/apyrimidinic) site pocket; other site 424182012241 DNA interaction; other site 424182012242 Metal-binding active site; metal-binding site 424182012243 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 424182012244 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 424182012245 Uncharacterized conserved protein [Function unknown]; Region: COG1944 424182012246 YcaO-like family; Region: YcaO; pfam02624 424182012247 Uncharacterized conserved protein [Function unknown]; Region: COG3482 424182012248 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182012249 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 424182012250 non-specific DNA binding site [nucleotide binding]; other site 424182012251 salt bridge; other site 424182012252 sequence-specific DNA binding site [nucleotide binding]; other site 424182012253 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182012254 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182012255 Walker A/P-loop; other site 424182012256 ATP binding site [chemical binding]; other site 424182012257 Q-loop/lid; other site 424182012258 ABC transporter signature motif; other site 424182012259 Walker B; other site 424182012260 D-loop; other site 424182012261 H-loop/switch region; other site 424182012262 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182012263 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 424182012264 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182012265 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 424182012266 TM-ABC transporter signature motif; other site 424182012267 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 424182012268 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 424182012269 putative ligand binding site [chemical binding]; other site 424182012270 MarR family; Region: MarR_2; cl17246 424182012271 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 424182012272 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 424182012273 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 424182012274 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182012275 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 424182012276 dimer interface [polypeptide binding]; other site 424182012277 substrate binding site [chemical binding]; other site 424182012278 metal binding site [ion binding]; metal-binding site 424182012279 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 424182012280 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 424182012281 active site 424182012282 substrate binding site [chemical binding]; other site 424182012283 coenzyme B12 binding site [chemical binding]; other site 424182012284 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 424182012285 B12 binding site [chemical binding]; other site 424182012286 cobalt ligand [ion binding]; other site 424182012287 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 424182012288 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 424182012289 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 424182012290 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 424182012291 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 424182012292 carboxyltransferase (CT) interaction site; other site 424182012293 biotinylation site [posttranslational modification]; other site 424182012294 putative S-transferase; Provisional; Region: PRK11752 424182012295 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 424182012296 C-terminal domain interface [polypeptide binding]; other site 424182012297 GSH binding site (G-site) [chemical binding]; other site 424182012298 dimer interface [polypeptide binding]; other site 424182012299 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 424182012300 dimer interface [polypeptide binding]; other site 424182012301 N-terminal domain interface [polypeptide binding]; other site 424182012302 active site 424182012303 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 424182012304 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 424182012305 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 424182012306 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182012307 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 424182012308 non-specific DNA binding site [nucleotide binding]; other site 424182012309 salt bridge; other site 424182012310 sequence-specific DNA binding site [nucleotide binding]; other site 424182012311 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 424182012312 Domain of unknown function (DUF955); Region: DUF955; pfam06114 424182012313 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 424182012314 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 424182012315 endonuclease III; Region: ENDO3c; smart00478 424182012316 minor groove reading motif; other site 424182012317 helix-hairpin-helix signature motif; other site 424182012318 substrate binding pocket [chemical binding]; other site 424182012319 active site 424182012320 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 424182012321 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 424182012322 active site 424182012323 HIGH motif; other site 424182012324 nucleotide binding site [chemical binding]; other site 424182012325 active site 424182012326 KMSKS motif; other site 424182012327 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 424182012328 short chain dehydrogenase; Provisional; Region: PRK05993 424182012329 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 424182012330 NADP binding site [chemical binding]; other site 424182012331 active site 424182012332 steroid binding site; other site 424182012333 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 424182012334 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 424182012335 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 424182012336 Ligand binding site [chemical binding]; other site 424182012337 Electron transfer flavoprotein domain; Region: ETF; pfam01012 424182012338 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 424182012339 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 424182012340 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 424182012341 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 424182012342 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 424182012343 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 424182012344 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 424182012345 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 424182012346 catalytic residues [active] 424182012347 argininosuccinate lyase; Provisional; Region: PRK00855 424182012348 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 424182012349 active sites [active] 424182012350 tetramer interface [polypeptide binding]; other site 424182012351 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 424182012352 diaminopimelate decarboxylase; Region: lysA; TIGR01048 424182012353 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 424182012354 active site 424182012355 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 424182012356 substrate binding site [chemical binding]; other site 424182012357 catalytic residues [active] 424182012358 dimer interface [polypeptide binding]; other site 424182012359 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 424182012360 Response regulator receiver domain; Region: Response_reg; pfam00072 424182012361 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 424182012362 active site 424182012363 phosphorylation site [posttranslational modification] 424182012364 intermolecular recognition site; other site 424182012365 dimerization interface [polypeptide binding]; other site 424182012366 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 424182012367 active site 424182012368 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 424182012369 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 424182012370 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 424182012371 Walker A/P-loop; other site 424182012372 ATP binding site [chemical binding]; other site 424182012373 Q-loop/lid; other site 424182012374 ABC transporter signature motif; other site 424182012375 Walker B; other site 424182012376 D-loop; other site 424182012377 H-loop/switch region; other site 424182012378 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 424182012379 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 424182012380 Uncharacterized conserved protein [Function unknown]; Region: COG1434 424182012381 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 424182012382 putative active site [active] 424182012383 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 424182012384 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 424182012385 putative acyl-acceptor binding pocket; other site 424182012386 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 424182012387 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 424182012388 putative active site pocket [active] 424182012389 dimerization interface [polypeptide binding]; other site 424182012390 putative catalytic residue [active] 424182012391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 424182012392 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 424182012393 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 424182012394 prephenate dehydrogenase; Validated; Region: PRK08507 424182012395 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 424182012396 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 424182012397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182012398 homodimer interface [polypeptide binding]; other site 424182012399 catalytic residue [active] 424182012400 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 424182012401 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 424182012402 Uncharacterized conserved protein [Function unknown]; Region: COG3542 424182012403 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 424182012404 G5 domain; Region: G5; pfam07501 424182012405 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 424182012406 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 424182012407 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 424182012408 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 424182012409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 424182012410 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 424182012411 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 424182012412 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 424182012413 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 424182012414 metal ion-dependent adhesion site (MIDAS); other site 424182012415 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 424182012416 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 424182012417 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 424182012418 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 424182012419 HSP70 interaction site [polypeptide binding]; other site 424182012420 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 424182012421 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 424182012422 active site 424182012423 dimer interface [polypeptide binding]; other site 424182012424 metal binding site [ion binding]; metal-binding site 424182012425 shikimate kinase; Provisional; Region: PRK13946 424182012426 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 424182012427 ADP binding site [chemical binding]; other site 424182012428 magnesium binding site [ion binding]; other site 424182012429 putative shikimate binding site; other site 424182012430 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 424182012431 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 424182012432 active site 424182012433 DNA binding site [nucleotide binding] 424182012434 Int/Topo IB signature motif; other site 424182012435 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 424182012436 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 424182012437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 424182012438 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 424182012439 CPxP motif; other site 424182012440 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 424182012441 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 424182012442 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 424182012443 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 424182012444 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 424182012445 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182012446 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 424182012447 metal binding site [ion binding]; metal-binding site 424182012448 putative dimer interface [polypeptide binding]; other site 424182012449 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 424182012450 Transglycosylase; Region: Transgly; pfam00912 424182012451 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 424182012452 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 424182012453 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 424182012454 putative binding site; other site 424182012455 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 424182012456 MG2 domain; Region: A2M_N; pfam01835 424182012457 Alpha-2-macroglobulin family; Region: A2M; pfam00207 424182012458 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 424182012459 surface patch; other site 424182012460 thioester region; other site 424182012461 specificity defining residues; other site 424182012462 Uncharacterized conserved protein [Function unknown]; Region: COG2835 424182012463 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 424182012464 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 424182012465 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 424182012466 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 424182012467 binding surface 424182012468 TPR motif; other site 424182012469 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 424182012470 putative deacylase active site [active] 424182012471 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 424182012472 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 424182012473 Ligand Binding Site [chemical binding]; other site 424182012474 OpgC protein; Region: OpgC_C; cl17858 424182012475 Acyltransferase family; Region: Acyl_transf_3; pfam01757 424182012476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 424182012477 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 424182012478 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 424182012479 ligand binding site [chemical binding]; other site 424182012480 NAD binding site [chemical binding]; other site 424182012481 dimerization interface [polypeptide binding]; other site 424182012482 catalytic site [active] 424182012483 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 424182012484 putative L-serine binding site [chemical binding]; other site 424182012485 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 424182012486 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182012487 catalytic residue [active] 424182012488 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 424182012489 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 424182012490 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 424182012491 active site 424182012492 substrate binding site [chemical binding]; other site 424182012493 metal binding site [ion binding]; metal-binding site 424182012494 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 424182012495 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 424182012496 Walker A motif; other site 424182012497 ATP binding site [chemical binding]; other site 424182012498 Walker B motif; other site 424182012499 arginine finger; other site 424182012500 Peptidase family M41; Region: Peptidase_M41; pfam01434 424182012501 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 424182012502 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 424182012503 Ligand Binding Site [chemical binding]; other site 424182012504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 424182012505 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 424182012506 binding surface 424182012507 TPR motif; other site 424182012508 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 424182012509 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 424182012510 ligand binding site [chemical binding]; other site 424182012511 translocation protein TolB; Provisional; Region: tolB; PRK05137 424182012512 TolB amino-terminal domain; Region: TolB_N; pfam04052 424182012513 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 424182012514 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 424182012515 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 424182012516 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 424182012517 TolR protein; Region: tolR; TIGR02801 424182012518 TolQ protein; Region: tolQ; TIGR02796 424182012519 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 424182012520 active site 424182012521 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 424182012522 nudix motif; other site 424182012523 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 424182012524 nudix motif; other site 424182012525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 424182012526 DinB superfamily; Region: DinB_2; pfam12867 424182012527 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 424182012528 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 424182012529 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 424182012530 Walker A motif; other site 424182012531 ATP binding site [chemical binding]; other site 424182012532 Walker B motif; other site 424182012533 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 424182012534 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 424182012535 RuvA N terminal domain; Region: RuvA_N; pfam01330 424182012536 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 424182012537 active site 424182012538 putative DNA-binding cleft [nucleotide binding]; other site 424182012539 dimer interface [polypeptide binding]; other site 424182012540 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 424182012541 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 424182012542 hypothetical protein; Validated; Region: PRK00110 424182012543 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 424182012544 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 424182012545 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 424182012546 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 424182012547 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 424182012548 putative active site [active] 424182012549 metal binding site [ion binding]; metal-binding site 424182012550 homodimer binding site [polypeptide binding]; other site 424182012551 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 424182012552 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 424182012553 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 424182012554 Domain of unknown function DUF21; Region: DUF21; pfam01595 424182012555 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 424182012556 Transporter associated domain; Region: CorC_HlyC; smart01091 424182012557 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 424182012558 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 424182012559 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 424182012560 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 424182012561 TPP-binding site [chemical binding]; other site 424182012562 dimer interface [polypeptide binding]; other site 424182012563 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 424182012564 PYR/PP interface [polypeptide binding]; other site 424182012565 dimer interface [polypeptide binding]; other site 424182012566 TPP binding site [chemical binding]; other site 424182012567 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 424182012568 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 424182012569 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 424182012570 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 424182012571 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 424182012572 Phosphoglycerate kinase; Region: PGK; pfam00162 424182012573 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 424182012574 substrate binding site [chemical binding]; other site 424182012575 hinge regions; other site 424182012576 ADP binding site [chemical binding]; other site 424182012577 catalytic site [active] 424182012578 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 424182012579 active site 424182012580 intersubunit interface [polypeptide binding]; other site 424182012581 catalytic residue [active] 424182012582 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 424182012583 putative substrate translocation pore; other site 424182012584 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 424182012585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 424182012586 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 424182012587 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 424182012588 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182012589 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182012590 Walker A/P-loop; other site 424182012591 ATP binding site [chemical binding]; other site 424182012592 Q-loop/lid; other site 424182012593 ABC transporter signature motif; other site 424182012594 Walker B; other site 424182012595 D-loop; other site 424182012596 H-loop/switch region; other site 424182012597 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 424182012598 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 424182012599 hypothetical protein; Validated; Region: PRK09039 424182012600 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 424182012601 ligand binding site [chemical binding]; other site 424182012602 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182012603 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 424182012604 active site 424182012605 dimerization interface [polypeptide binding]; other site 424182012606 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 424182012607 Sel1-like repeats; Region: SEL1; smart00671 424182012608 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 424182012609 thiamine phosphate binding site [chemical binding]; other site 424182012610 active site 424182012611 pyrophosphate binding site [ion binding]; other site 424182012612 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 424182012613 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 424182012614 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 424182012615 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 424182012616 ATP-grasp domain; Region: ATP-grasp; pfam02222 424182012617 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 424182012618 TPR repeat; Region: TPR_11; pfam13414 424182012619 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 424182012620 TPR motif; other site 424182012621 binding surface 424182012622 Tetratricopeptide repeat; Region: TPR_16; pfam13432 424182012623 hypothetical protein; Provisional; Region: PRK13694 424182012624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 424182012625 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 424182012626 Predicted integral membrane protein [Function unknown]; Region: COG5480 424182012627 pyruvate kinase; Provisional; Region: PRK06247 424182012628 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 424182012629 domain interfaces; other site 424182012630 active site 424182012631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 424182012632 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 424182012633 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 424182012634 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 424182012635 active site 424182012636 phosphorylation site [posttranslational modification] 424182012637 intermolecular recognition site; other site 424182012638 dimerization interface [polypeptide binding]; other site 424182012639 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 424182012640 Walker A motif; other site 424182012641 ATP binding site [chemical binding]; other site 424182012642 Walker B motif; other site 424182012643 arginine finger; other site 424182012644 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 424182012645 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 424182012646 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 424182012647 active site 424182012648 Zn binding site [ion binding]; other site 424182012649 hypothetical protein; Provisional; Region: PRK07546 424182012650 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 424182012651 substrate-cofactor binding pocket; other site 424182012652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182012653 homodimer interface [polypeptide binding]; other site 424182012654 catalytic residue [active] 424182012655 PAS fold; Region: PAS_7; pfam12860 424182012656 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182012657 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182012658 metal binding site [ion binding]; metal-binding site 424182012659 active site 424182012660 I-site; other site 424182012661 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 424182012662 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 424182012663 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 424182012664 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 424182012665 active site 424182012666 metal binding site [ion binding]; metal-binding site 424182012667 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 424182012668 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 424182012669 ferrochelatase; Reviewed; Region: hemH; PRK00035 424182012670 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 424182012671 C-terminal domain interface [polypeptide binding]; other site 424182012672 active site 424182012673 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 424182012674 active site 424182012675 N-terminal domain interface [polypeptide binding]; other site 424182012676 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 424182012677 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 424182012678 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 424182012679 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 424182012680 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 424182012681 putative active site [active] 424182012682 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 424182012683 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 424182012684 PAS fold; Region: PAS_3; pfam08447 424182012685 putative active site [active] 424182012686 heme pocket [chemical binding]; other site 424182012687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 424182012688 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 424182012689 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 424182012690 active site 424182012691 tetramer interface; other site 424182012692 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 424182012693 murein hydrolase B; Provisional; Region: PRK10760; cl17906 424182012694 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 424182012695 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 424182012696 active site 424182012697 catalytic triad [active] 424182012698 oxyanion hole [active] 424182012699 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182012700 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 424182012701 active site 424182012702 phosphorylation site [posttranslational modification] 424182012703 intermolecular recognition site; other site 424182012704 dimerization interface [polypeptide binding]; other site 424182012705 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 424182012706 DNA binding site [nucleotide binding] 424182012707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182012708 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 424182012709 dimer interface [polypeptide binding]; other site 424182012710 phosphorylation site [posttranslational modification] 424182012711 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 424182012712 ATP binding site [chemical binding]; other site 424182012713 Mg2+ binding site [ion binding]; other site 424182012714 G-X-G motif; other site 424182012715 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 424182012716 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 424182012717 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 424182012718 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 424182012719 active site 424182012720 dimer interface [polypeptide binding]; other site 424182012721 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 424182012722 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 424182012723 active site 424182012724 FMN binding site [chemical binding]; other site 424182012725 substrate binding site [chemical binding]; other site 424182012726 3Fe-4S cluster binding site [ion binding]; other site 424182012727 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 424182012728 domain interface; other site 424182012729 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 424182012730 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 424182012731 tetramer interface [polypeptide binding]; other site 424182012732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182012733 catalytic residue [active] 424182012734 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182012735 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 424182012736 active site 424182012737 phosphorylation site [posttranslational modification] 424182012738 intermolecular recognition site; other site 424182012739 dimerization interface [polypeptide binding]; other site 424182012740 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 424182012741 DNA binding site [nucleotide binding] 424182012742 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 424182012743 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 424182012744 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 424182012745 Ligand Binding Site [chemical binding]; other site 424182012746 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 424182012747 GAF domain; Region: GAF_3; pfam13492 424182012748 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 424182012749 dimer interface [polypeptide binding]; other site 424182012750 phosphorylation site [posttranslational modification] 424182012751 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 424182012752 ATP binding site [chemical binding]; other site 424182012753 Mg2+ binding site [ion binding]; other site 424182012754 G-X-G motif; other site 424182012755 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 424182012756 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 424182012757 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 424182012758 Soluble P-type ATPase [General function prediction only]; Region: COG4087 424182012759 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 424182012760 potassium-transporting ATPase subunit F; Provisional; Region: PRK14759 424182012761 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 424182012762 active site 424182012763 homotetramer interface [polypeptide binding]; other site 424182012764 homodimer interface [polypeptide binding]; other site 424182012765 L-asparagine permease; Provisional; Region: PRK15049 424182012766 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 424182012767 Aspartase; Region: Aspartase; cd01357 424182012768 active sites [active] 424182012769 tetramer interface [polypeptide binding]; other site 424182012770 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182012771 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182012772 DNA-binding site [nucleotide binding]; DNA binding site 424182012773 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182012774 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 424182012775 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182012776 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182012777 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182012778 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182012779 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182012780 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182012781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182012782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182012783 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182012784 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182012785 DNA binding site [nucleotide binding] 424182012786 domain linker motif; other site 424182012787 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 424182012788 ligand binding site [chemical binding]; other site 424182012789 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182012790 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182012791 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182012792 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 424182012793 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182012794 DNA interaction; other site 424182012795 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182012796 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182012797 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182012798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182012799 dimer interface [polypeptide binding]; other site 424182012800 conserved gate region; other site 424182012801 putative PBP binding loops; other site 424182012802 ABC-ATPase subunit interface; other site 424182012803 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182012804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182012805 dimer interface [polypeptide binding]; other site 424182012806 conserved gate region; other site 424182012807 ABC-ATPase subunit interface; other site 424182012808 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182012809 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182012810 Walker A/P-loop; other site 424182012811 ATP binding site [chemical binding]; other site 424182012812 Q-loop/lid; other site 424182012813 ABC transporter signature motif; other site 424182012814 Walker B; other site 424182012815 D-loop; other site 424182012816 H-loop/switch region; other site 424182012817 TOBE domain; Region: TOBE_2; pfam08402 424182012818 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182012819 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182012820 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 424182012821 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182012822 Walker A/P-loop; other site 424182012823 ATP binding site [chemical binding]; other site 424182012824 Q-loop/lid; other site 424182012825 ABC transporter signature motif; other site 424182012826 Walker B; other site 424182012827 D-loop; other site 424182012828 H-loop/switch region; other site 424182012829 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182012830 NMT1-like family; Region: NMT1_2; pfam13379 424182012831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 424182012832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182012833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182012834 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 424182012835 putative dimerization interface [polypeptide binding]; other site 424182012836 Uncharacterized conserved protein [Function unknown]; Region: COG5482 424182012837 methionine gamma-lyase; Validated; Region: PRK07049 424182012838 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 424182012839 homodimer interface [polypeptide binding]; other site 424182012840 substrate-cofactor binding pocket; other site 424182012841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182012842 catalytic residue [active] 424182012843 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182012844 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 424182012845 putative DNA binding site [nucleotide binding]; other site 424182012846 putative Zn2+ binding site [ion binding]; other site 424182012847 AsnC family; Region: AsnC_trans_reg; pfam01037 424182012848 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 424182012849 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182012850 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182012851 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 424182012852 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182012853 dimer interface [polypeptide binding]; other site 424182012854 putative PBP binding loops; other site 424182012855 ABC-ATPase subunit interface; other site 424182012856 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182012857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182012858 dimer interface [polypeptide binding]; other site 424182012859 conserved gate region; other site 424182012860 putative PBP binding loops; other site 424182012861 ABC-ATPase subunit interface; other site 424182012862 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 424182012863 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 424182012864 DXD motif; other site 424182012865 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182012866 Response regulator receiver domain; Region: Response_reg; pfam00072 424182012867 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 424182012868 active site 424182012869 phosphorylation site [posttranslational modification] 424182012870 intermolecular recognition site; other site 424182012871 dimerization interface [polypeptide binding]; other site 424182012872 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 424182012873 Histidine kinase; Region: HisKA_2; pfam07568 424182012874 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 424182012875 ATP binding site [chemical binding]; other site 424182012876 Mg2+ binding site [ion binding]; other site 424182012877 G-X-G motif; other site 424182012878 Response regulator receiver domain; Region: Response_reg; pfam00072 424182012879 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 424182012880 active site 424182012881 phosphorylation site [posttranslational modification] 424182012882 intermolecular recognition site; other site 424182012883 dimerization interface [polypeptide binding]; other site 424182012884 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 424182012885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182012886 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 424182012887 dimer interface [polypeptide binding]; other site 424182012888 phosphorylation site [posttranslational modification] 424182012889 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 424182012890 ATP binding site [chemical binding]; other site 424182012891 Mg2+ binding site [ion binding]; other site 424182012892 G-X-G motif; other site 424182012893 Response regulator receiver domain; Region: Response_reg; pfam00072 424182012894 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 424182012895 active site 424182012896 phosphorylation site [posttranslational modification] 424182012897 intermolecular recognition site; other site 424182012898 dimerization interface [polypeptide binding]; other site 424182012899 Response regulator receiver domain; Region: Response_reg; pfam00072 424182012900 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 424182012901 active site 424182012902 phosphorylation site [posttranslational modification] 424182012903 intermolecular recognition site; other site 424182012904 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 424182012905 HWE histidine kinase; Region: HWE_HK; smart00911 424182012906 Response regulator receiver domain; Region: Response_reg; pfam00072 424182012907 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 424182012908 active site 424182012909 phosphorylation site [posttranslational modification] 424182012910 intermolecular recognition site; other site 424182012911 dimerization interface [polypeptide binding]; other site 424182012912 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 424182012913 GAF domain; Region: GAF; pfam01590 424182012914 Phytochrome region; Region: PHY; pfam00360 424182012915 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 424182012916 dimer interface [polypeptide binding]; other site 424182012917 phosphorylation site [posttranslational modification] 424182012918 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 424182012919 ATP binding site [chemical binding]; other site 424182012920 Mg2+ binding site [ion binding]; other site 424182012921 G-X-G motif; other site 424182012922 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 424182012923 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 424182012924 S-adenosylmethionine binding site [chemical binding]; other site 424182012925 Steroid 5-alpha reductase family enzyme [General function prediction only]; Region: COG3752 424182012926 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 424182012927 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 424182012928 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182012929 Uncharacterized conserved protein [Function unknown]; Region: COG3496 424182012930 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 424182012931 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 424182012932 S-adenosylmethionine binding site [chemical binding]; other site 424182012933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 424182012934 Predicted membrane protein [Function unknown]; Region: COG4852 424182012935 RNA polymerase sigma factor; Provisional; Region: PRK12514 424182012936 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182012937 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 424182012938 DNA binding residues [nucleotide binding] 424182012939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 424182012940 Anti-sigma-K factor rskA; Region: RskA; pfam10099 424182012941 ATP synthase archaeal, H subunit; Region: AhaH; TIGR02926 424182012942 PAS fold; Region: PAS_4; pfam08448 424182012943 PAS domain S-box; Region: sensory_box; TIGR00229 424182012944 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 424182012945 putative active site [active] 424182012946 heme pocket [chemical binding]; other site 424182012947 PAS domain S-box; Region: sensory_box; TIGR00229 424182012948 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 424182012949 putative active site [active] 424182012950 heme pocket [chemical binding]; other site 424182012951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 424182012952 HWE histidine kinase; Region: HWE_HK; pfam07536 424182012953 Predicted membrane protein [Function unknown]; Region: COG2259 424182012954 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 424182012955 short chain dehydrogenase; Provisional; Region: PRK12744 424182012956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182012957 NAD(P) binding site [chemical binding]; other site 424182012958 active site 424182012959 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182012960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182012961 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 424182012962 putative effector binding pocket; other site 424182012963 putative dimerization interface [polypeptide binding]; other site 424182012964 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 424182012965 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 424182012966 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182012967 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182012968 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 424182012969 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 424182012970 XdhC Rossmann domain; Region: XdhC_C; pfam13478 424182012971 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 424182012972 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 424182012973 catalytic loop [active] 424182012974 iron binding site [ion binding]; other site 424182012975 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 424182012976 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 424182012977 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 424182012978 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 424182012979 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 424182012980 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 424182012981 2-isopropylmalate synthase; Validated; Region: PRK03739 424182012982 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 424182012983 active site 424182012984 catalytic residues [active] 424182012985 metal binding site [ion binding]; metal-binding site 424182012986 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 424182012987 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 424182012988 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182012989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182012990 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182012991 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 424182012992 Ligand binding site; other site 424182012993 metal-binding site 424182012994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182012995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182012996 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 424182012997 putative effector binding pocket; other site 424182012998 putative dimerization interface [polypeptide binding]; other site 424182012999 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 424182013000 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 424182013001 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182013002 active site 424182013003 catalytic tetrad [active] 424182013004 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182013005 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182013006 dimer interface [polypeptide binding]; other site 424182013007 putative CheW interface [polypeptide binding]; other site 424182013008 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 424182013009 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 424182013010 TrkA-C domain; Region: TrkA_C; pfam02080 424182013011 TrkA-C domain; Region: TrkA_C; pfam02080 424182013012 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 424182013013 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 424182013014 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 424182013015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182013016 homodimer interface [polypeptide binding]; other site 424182013017 catalytic residue [active] 424182013018 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 424182013019 active site 424182013020 DNA polymerase IV; Validated; Region: PRK02406 424182013021 DNA binding site [nucleotide binding] 424182013022 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 424182013023 active site 424182013024 substrate binding site [chemical binding]; other site 424182013025 Phosphotransferase enzyme family; Region: APH; pfam01636 424182013026 ATP binding site [chemical binding]; other site 424182013027 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 424182013028 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 424182013029 inhibitor-cofactor binding pocket; inhibition site 424182013030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182013031 catalytic residue [active] 424182013032 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182013033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182013034 NAD(P) binding site [chemical binding]; other site 424182013035 active site 424182013036 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 424182013037 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182013038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182013039 Walker A/P-loop; other site 424182013040 ATP binding site [chemical binding]; other site 424182013041 Q-loop/lid; other site 424182013042 ABC transporter signature motif; other site 424182013043 Walker B; other site 424182013044 D-loop; other site 424182013045 H-loop/switch region; other site 424182013046 TOBE domain; Region: TOBE_2; pfam08402 424182013047 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013048 dimer interface [polypeptide binding]; other site 424182013049 conserved gate region; other site 424182013050 putative PBP binding loops; other site 424182013051 ABC-ATPase subunit interface; other site 424182013052 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182013053 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013054 dimer interface [polypeptide binding]; other site 424182013055 conserved gate region; other site 424182013056 putative PBP binding loops; other site 424182013057 ABC-ATPase subunit interface; other site 424182013058 Isochorismatase family; Region: Isochorismatase; pfam00857 424182013059 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 424182013060 catalytic triad [active] 424182013061 conserved cis-peptide bond; other site 424182013062 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 424182013063 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 424182013064 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 424182013065 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 424182013066 homodimer interface [polypeptide binding]; other site 424182013067 homotetramer interface [polypeptide binding]; other site 424182013068 active site pocket [active] 424182013069 cleavage site 424182013070 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 424182013071 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 424182013072 D-pathway; other site 424182013073 Putative ubiquinol binding site [chemical binding]; other site 424182013074 Low-spin heme (heme b) binding site [chemical binding]; other site 424182013075 Putative water exit pathway; other site 424182013076 Binuclear center (heme o3/CuB) [ion binding]; other site 424182013077 K-pathway; other site 424182013078 Putative proton exit pathway; other site 424182013079 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 424182013080 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 424182013081 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 424182013082 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 424182013083 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 424182013084 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 424182013085 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 424182013086 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 424182013087 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 424182013088 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 424182013089 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 424182013090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 424182013091 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 424182013092 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 424182013093 putative catalytic residue [active] 424182013094 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 424182013095 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 424182013096 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182013097 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 424182013098 Walker A/P-loop; other site 424182013099 ATP binding site [chemical binding]; other site 424182013100 Q-loop/lid; other site 424182013101 ABC transporter signature motif; other site 424182013102 Walker B; other site 424182013103 D-loop; other site 424182013104 H-loop/switch region; other site 424182013105 TOBE domain; Region: TOBE_2; pfam08402 424182013106 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182013107 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013108 dimer interface [polypeptide binding]; other site 424182013109 conserved gate region; other site 424182013110 putative PBP binding loops; other site 424182013111 ABC-ATPase subunit interface; other site 424182013112 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182013113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182013114 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013115 ABC-ATPase subunit interface; other site 424182013116 putative PBP binding loops; other site 424182013117 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 424182013118 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182013119 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013121 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 424182013122 dimerization interface [polypeptide binding]; other site 424182013123 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 424182013124 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 424182013125 FOG: HAMP domain [Signal transduction mechanisms]; Region: ResE; COG2770 424182013126 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 424182013127 GAF domain; Region: GAF_3; pfam13492 424182013128 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182013129 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182013130 metal binding site [ion binding]; metal-binding site 424182013131 active site 424182013132 I-site; other site 424182013133 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 424182013134 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 424182013135 Walker A motif; other site 424182013136 ATP binding site [chemical binding]; other site 424182013137 Walker B motif; other site 424182013138 arginine finger; other site 424182013139 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 424182013140 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 424182013141 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 424182013142 putative NAD(P) binding site [chemical binding]; other site 424182013143 catalytic Zn binding site [ion binding]; other site 424182013144 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 424182013145 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 424182013146 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182013147 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182013148 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 424182013149 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 424182013150 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 424182013151 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 424182013152 Autotransporter beta-domain; Region: Autotransporter; smart00869 424182013153 mercuric reductase; Validated; Region: PRK06370 424182013154 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 424182013155 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182013156 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 424182013157 Predicted membrane protein [Function unknown]; Region: COG3918 424182013158 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 424182013159 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 424182013160 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 424182013161 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 424182013162 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 424182013163 siderophore binding site; other site 424182013164 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 424182013165 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 424182013166 N-terminal plug; other site 424182013167 ligand-binding site [chemical binding]; other site 424182013168 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182013169 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 424182013170 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 424182013171 Walker A/P-loop; other site 424182013172 ATP binding site [chemical binding]; other site 424182013173 Q-loop/lid; other site 424182013174 ABC transporter signature motif; other site 424182013175 Walker B; other site 424182013176 D-loop; other site 424182013177 H-loop/switch region; other site 424182013178 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 424182013179 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 424182013180 ABC-ATPase subunit interface; other site 424182013181 dimer interface [polypeptide binding]; other site 424182013182 putative PBP binding regions; other site 424182013183 FecCD transport family; Region: FecCD; pfam01032 424182013184 ABC-ATPase subunit interface; other site 424182013185 dimer interface [polypeptide binding]; other site 424182013186 putative PBP binding regions; other site 424182013187 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182013188 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 424182013189 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182013190 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182013191 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 424182013192 Fusaric acid resistance protein family; Region: FUSC; pfam04632 424182013193 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 424182013194 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182013195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182013196 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 424182013197 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182013198 transcriptional regulator; Provisional; Region: PRK10632 424182013199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013200 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 424182013201 putative effector binding pocket; other site 424182013202 putative dimerization interface [polypeptide binding]; other site 424182013203 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 424182013204 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 424182013205 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 424182013206 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 424182013207 putative substrate translocation pore; other site 424182013208 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013210 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_7; cd08476 424182013211 putative effector binding pocket; other site 424182013212 putative dimerization interface [polypeptide binding]; other site 424182013213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013215 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 424182013216 substrate binding pocket [chemical binding]; other site 424182013217 dimerization interface [polypeptide binding]; other site 424182013218 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 424182013219 Beta-lactamase; Region: Beta-lactamase; pfam00144 424182013220 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 424182013221 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182013222 Walker A/P-loop; other site 424182013223 ATP binding site [chemical binding]; other site 424182013224 Q-loop/lid; other site 424182013225 ABC transporter signature motif; other site 424182013226 Walker B; other site 424182013227 D-loop; other site 424182013228 H-loop/switch region; other site 424182013229 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 424182013230 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 424182013231 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182013232 Walker A/P-loop; other site 424182013233 ATP binding site [chemical binding]; other site 424182013234 Q-loop/lid; other site 424182013235 ABC transporter signature motif; other site 424182013236 Walker B; other site 424182013237 D-loop; other site 424182013238 H-loop/switch region; other site 424182013239 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182013240 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 424182013241 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013242 dimer interface [polypeptide binding]; other site 424182013243 conserved gate region; other site 424182013244 putative PBP binding loops; other site 424182013245 ABC-ATPase subunit interface; other site 424182013246 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182013247 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013248 dimer interface [polypeptide binding]; other site 424182013249 conserved gate region; other site 424182013250 putative PBP binding loops; other site 424182013251 ABC-ATPase subunit interface; other site 424182013252 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182013253 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 424182013254 septum site-determining protein MinC; Region: minC; TIGR01222 424182013255 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 424182013256 PAS domain; Region: PAS_9; pfam13426 424182013257 putative active site [active] 424182013258 heme pocket [chemical binding]; other site 424182013259 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 424182013260 Histidine kinase; Region: HisKA_2; pfam07568 424182013261 response regulator; Provisional; Region: PRK13435 424182013262 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 424182013263 active site 424182013264 phosphorylation site [posttranslational modification] 424182013265 intermolecular recognition site; other site 424182013266 dimerization interface [polypeptide binding]; other site 424182013267 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 424182013268 GAF domain; Region: GAF; pfam01590 424182013269 PAS domain S-box; Region: sensory_box; TIGR00229 424182013270 PAS domain S-box; Region: sensory_box; TIGR00229 424182013271 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 424182013272 putative active site [active] 424182013273 heme pocket [chemical binding]; other site 424182013274 GAF domain; Region: GAF; pfam01590 424182013275 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 424182013276 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 424182013277 HWE histidine kinase; Region: HWE_HK; smart00911 424182013278 BA14K-like protein; Region: BA14K; pfam07886 424182013279 BA14K-like protein; Region: BA14K; pfam07886 424182013280 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 424182013281 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 424182013282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 424182013283 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 424182013284 ATP binding site [chemical binding]; other site 424182013285 Mg2+ binding site [ion binding]; other site 424182013286 G-X-G motif; other site 424182013287 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182013288 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 424182013289 active site 424182013290 phosphorylation site [posttranslational modification] 424182013291 intermolecular recognition site; other site 424182013292 dimerization interface [polypeptide binding]; other site 424182013293 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 424182013294 DNA binding residues [nucleotide binding] 424182013295 dimerization interface [polypeptide binding]; other site 424182013296 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 424182013297 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 424182013298 RNA polymerase sigma factor; Provisional; Region: PRK11924 424182013299 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182013300 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 424182013301 DNA binding residues [nucleotide binding] 424182013302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 424182013303 Anti-sigma-K factor rskA; Region: RskA; pfam10099 424182013304 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 424182013305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013307 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 424182013308 putative effector binding pocket; other site 424182013309 dimerization interface [polypeptide binding]; other site 424182013310 short chain dehydrogenase; Provisional; Region: PRK06500 424182013311 classical (c) SDRs; Region: SDR_c; cd05233 424182013312 NAD(P) binding site [chemical binding]; other site 424182013313 active site 424182013314 HAMP domain; Region: HAMP; pfam00672 424182013315 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182013316 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182013317 dimer interface [polypeptide binding]; other site 424182013318 putative CheW interface [polypeptide binding]; other site 424182013319 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182013320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182013321 metal binding site [ion binding]; metal-binding site 424182013322 active site 424182013323 I-site; other site 424182013324 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 424182013325 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 424182013326 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182013327 Serine hydrolase; Region: Ser_hydrolase; cl17834 424182013328 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 424182013329 MarR family; Region: MarR; pfam01047 424182013330 short chain dehydrogenase; Provisional; Region: PRK06523 424182013331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182013332 NAD(P) binding site [chemical binding]; other site 424182013333 active site 424182013334 SnoaL-like domain; Region: SnoaL_2; pfam12680 424182013335 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013337 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 424182013338 putative effector binding pocket; other site 424182013339 putative dimerization interface [polypeptide binding]; other site 424182013340 glycerate dehydrogenase; Provisional; Region: PRK06487 424182013341 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 424182013342 putative ligand binding site [chemical binding]; other site 424182013343 putative NAD binding site [chemical binding]; other site 424182013344 catalytic site [active] 424182013345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 424182013346 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 424182013347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 424182013348 hypothetical protein; Validated; Region: PRK06201 424182013349 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 424182013350 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 424182013351 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 424182013352 ligand binding site [chemical binding]; other site 424182013353 NAD binding site [chemical binding]; other site 424182013354 dimerization interface [polypeptide binding]; other site 424182013355 catalytic site [active] 424182013356 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013357 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013358 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 424182013359 dimerization interface [polypeptide binding]; other site 424182013360 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182013361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182013362 DNA-binding site [nucleotide binding]; DNA binding site 424182013363 FCD domain; Region: FCD; pfam07729 424182013364 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182013365 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182013366 Walker A/P-loop; other site 424182013367 ATP binding site [chemical binding]; other site 424182013368 Q-loop/lid; other site 424182013369 ABC transporter signature motif; other site 424182013370 Walker B; other site 424182013371 D-loop; other site 424182013372 H-loop/switch region; other site 424182013373 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182013374 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013375 dimer interface [polypeptide binding]; other site 424182013376 conserved gate region; other site 424182013377 putative PBP binding loops; other site 424182013378 ABC-ATPase subunit interface; other site 424182013379 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182013380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013381 dimer interface [polypeptide binding]; other site 424182013382 conserved gate region; other site 424182013383 putative PBP binding loops; other site 424182013384 ABC-ATPase subunit interface; other site 424182013385 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182013386 Superinfection exclusion protein B; Region: SieB; pfam14163 424182013387 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 424182013388 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 424182013389 classical (c) SDRs; Region: SDR_c; cd05233 424182013390 NAD(P) binding site [chemical binding]; other site 424182013391 active site 424182013392 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 424182013393 active site 424182013394 oxyanion hole [active] 424182013395 catalytic triad [active] 424182013396 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 424182013397 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 424182013398 putative ligand binding site [chemical binding]; other site 424182013399 putative NAD binding site [chemical binding]; other site 424182013400 catalytic site [active] 424182013401 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 424182013402 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182013403 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 424182013404 active site 424182013405 tetramer interface [polypeptide binding]; other site 424182013406 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 424182013407 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 424182013408 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 424182013409 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 424182013410 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 424182013411 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 424182013412 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 424182013413 catalytic loop [active] 424182013414 iron binding site [ion binding]; other site 424182013415 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 424182013416 MarR family; Region: MarR_2; cl17246 424182013417 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 424182013418 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 424182013419 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 424182013420 active site 424182013421 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182013422 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 424182013423 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182013424 TM-ABC transporter signature motif; other site 424182013425 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182013426 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 424182013427 TM-ABC transporter signature motif; other site 424182013428 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182013429 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182013430 Walker A/P-loop; other site 424182013431 ATP binding site [chemical binding]; other site 424182013432 Q-loop/lid; other site 424182013433 ABC transporter signature motif; other site 424182013434 Walker B; other site 424182013435 D-loop; other site 424182013436 H-loop/switch region; other site 424182013437 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182013438 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 424182013439 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182013440 ligand binding site [chemical binding]; other site 424182013441 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182013442 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182013443 DNA binding site [nucleotide binding] 424182013444 domain linker motif; other site 424182013445 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 424182013446 dimerization interface [polypeptide binding]; other site 424182013447 ligand binding site [chemical binding]; other site 424182013448 Predicted transcriptional regulators [Transcription]; Region: COG1733 424182013449 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 424182013450 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 424182013451 classical (c) SDRs; Region: SDR_c; cd05233 424182013452 NAD(P) binding site [chemical binding]; other site 424182013453 active site 424182013454 short chain dehydrogenase; Validated; Region: PRK06182 424182013455 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 424182013456 NADP binding site [chemical binding]; other site 424182013457 active site 424182013458 steroid binding site; other site 424182013459 Cupin; Region: Cupin_6; pfam12852 424182013460 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182013461 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182013462 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182013463 DNA-binding site [nucleotide binding]; DNA binding site 424182013464 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 424182013465 UTRA domain; Region: UTRA; pfam07702 424182013466 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 424182013467 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 424182013468 active site 424182013469 imidazolonepropionase; Validated; Region: PRK09356 424182013470 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 424182013471 active site 424182013472 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 424182013473 active sites [active] 424182013474 tetramer interface [polypeptide binding]; other site 424182013475 N-formylglutamate amidohydrolase; Region: FGase; cl01522 424182013476 urocanate hydratase; Provisional; Region: PRK05414 424182013477 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182013478 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 424182013479 catalytic site [active] 424182013480 HutD; Region: HutD; cl01532 424182013481 Uncharacterized conserved protein [Function unknown]; Region: COG5476 424182013482 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 424182013483 MlrC C-terminus; Region: MlrC_C; pfam07171 424182013484 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 424182013485 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 424182013486 dimer interface [polypeptide binding]; other site 424182013487 active site 424182013488 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 424182013489 substrate binding site [chemical binding]; other site 424182013490 catalytic residue [active] 424182013491 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 424182013492 homotrimer interaction site [polypeptide binding]; other site 424182013493 putative active site [active] 424182013494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 424182013495 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 424182013496 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 424182013497 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 424182013498 P-loop; other site 424182013499 Magnesium ion binding site [ion binding]; other site 424182013500 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 424182013501 Magnesium ion binding site [ion binding]; other site 424182013502 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 424182013503 ParB-like nuclease domain; Region: ParBc; pfam02195 424182013504 replication initiation protein RepC; Provisional; Region: PRK13824 424182013505 Replication protein C N-terminal domain; Region: RP-C; pfam03428 424182013506 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 424182013507 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 424182013508 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013510 hypothetical protein; Validated; Region: PRK09071 424182013511 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 424182013512 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 424182013513 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 424182013514 N-terminal plug; other site 424182013515 ligand-binding site [chemical binding]; other site 424182013516 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 424182013517 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 424182013518 DNA binding residues [nucleotide binding] 424182013519 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 424182013520 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 424182013521 active site 424182013522 Na/Ca binding site [ion binding]; other site 424182013523 catalytic site [active] 424182013524 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 424182013525 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 424182013526 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 424182013527 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 424182013528 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 424182013529 carboxyltransferase (CT) interaction site; other site 424182013530 biotinylation site [posttranslational modification]; other site 424182013531 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 424182013532 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 424182013533 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 424182013534 hypothetical protein; Provisional; Region: PRK05463 424182013535 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 424182013536 putative active site [active] 424182013537 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 424182013538 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182013539 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182013540 DNA-binding site [nucleotide binding]; DNA binding site 424182013541 FCD domain; Region: FCD; pfam07729 424182013542 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 424182013543 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 424182013544 active site 424182013545 phosphorylation site [posttranslational modification] 424182013546 intermolecular recognition site; other site 424182013547 ANTAR domain; Region: ANTAR; pfam03861 424182013548 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182013549 NMT1-like family; Region: NMT1_2; pfam13379 424182013550 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182013551 NMT1-like family; Region: NMT1_2; pfam13379 424182013552 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182013553 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013554 putative PBP binding loops; other site 424182013555 dimer interface [polypeptide binding]; other site 424182013556 ABC-ATPase subunit interface; other site 424182013557 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 424182013558 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182013559 Walker A/P-loop; other site 424182013560 ATP binding site [chemical binding]; other site 424182013561 Q-loop/lid; other site 424182013562 ABC transporter signature motif; other site 424182013563 Walker B; other site 424182013564 D-loop; other site 424182013565 H-loop/switch region; other site 424182013566 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 424182013567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182013568 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 424182013569 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 424182013570 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 424182013571 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 424182013572 [2Fe-2S] cluster binding site [ion binding]; other site 424182013573 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 424182013574 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 424182013575 [4Fe-4S] binding site [ion binding]; other site 424182013576 molybdopterin cofactor binding site; other site 424182013577 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 424182013578 molybdopterin cofactor binding site; other site 424182013579 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 424182013580 siroheme synthase; Provisional; Region: cysG; PRK10637 424182013581 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 424182013582 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 424182013583 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 424182013584 active site 424182013585 SAM binding site [chemical binding]; other site 424182013586 homodimer interface [polypeptide binding]; other site 424182013587 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 424182013588 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 424182013589 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 424182013590 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 424182013591 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182013592 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 424182013593 Walker A/P-loop; other site 424182013594 ATP binding site [chemical binding]; other site 424182013595 Q-loop/lid; other site 424182013596 ABC transporter signature motif; other site 424182013597 Walker B; other site 424182013598 D-loop; other site 424182013599 H-loop/switch region; other site 424182013600 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182013601 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 424182013602 Walker A/P-loop; other site 424182013603 ATP binding site [chemical binding]; other site 424182013604 Q-loop/lid; other site 424182013605 ABC transporter signature motif; other site 424182013606 Walker B; other site 424182013607 D-loop; other site 424182013608 H-loop/switch region; other site 424182013609 TOBE domain; Region: TOBE_2; pfam08402 424182013610 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013611 dimer interface [polypeptide binding]; other site 424182013612 conserved gate region; other site 424182013613 putative PBP binding loops; other site 424182013614 ABC-ATPase subunit interface; other site 424182013615 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182013616 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013617 dimer interface [polypeptide binding]; other site 424182013618 conserved gate region; other site 424182013619 putative PBP binding loops; other site 424182013620 ABC-ATPase subunit interface; other site 424182013621 Predicted small integral membrane protein [Function unknown]; Region: COG5477 424182013622 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182013623 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 424182013624 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 424182013625 N- and C-terminal domain interface [polypeptide binding]; other site 424182013626 active site 424182013627 MgATP binding site [chemical binding]; other site 424182013628 catalytic site [active] 424182013629 metal binding site [ion binding]; metal-binding site 424182013630 glycerol binding site [chemical binding]; other site 424182013631 homotetramer interface [polypeptide binding]; other site 424182013632 homodimer interface [polypeptide binding]; other site 424182013633 FBP binding site [chemical binding]; other site 424182013634 protein IIAGlc interface [polypeptide binding]; other site 424182013635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013637 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 424182013638 dimerization interface [polypeptide binding]; other site 424182013639 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 424182013640 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 424182013641 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 424182013642 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 424182013643 putative dimer interface [polypeptide binding]; other site 424182013644 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 424182013645 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182013646 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182013647 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 424182013648 active site 424182013649 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 424182013650 Response regulator receiver domain; Region: Response_reg; pfam00072 424182013651 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 424182013652 active site 424182013653 phosphorylation site [posttranslational modification] 424182013654 intermolecular recognition site; other site 424182013655 dimerization interface [polypeptide binding]; other site 424182013656 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 424182013657 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182013658 ligand binding site [chemical binding]; other site 424182013659 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182013660 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182013661 Walker A/P-loop; other site 424182013662 ATP binding site [chemical binding]; other site 424182013663 Q-loop/lid; other site 424182013664 ABC transporter signature motif; other site 424182013665 Walker B; other site 424182013666 D-loop; other site 424182013667 H-loop/switch region; other site 424182013668 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182013669 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182013670 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 424182013671 TM-ABC transporter signature motif; other site 424182013672 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 424182013673 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 424182013674 DNA binding residues [nucleotide binding] 424182013675 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 424182013676 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 424182013677 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182013678 active site 424182013679 catalytic tetrad [active] 424182013680 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 424182013681 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 424182013682 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 424182013683 putative active site; other site 424182013684 catalytic residue [active] 424182013685 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 424182013686 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 424182013687 putative N- and C-terminal domain interface [polypeptide binding]; other site 424182013688 putative active site [active] 424182013689 MgATP binding site [chemical binding]; other site 424182013690 catalytic site [active] 424182013691 metal binding site [ion binding]; metal-binding site 424182013692 putative xylulose binding site [chemical binding]; other site 424182013693 MarR family; Region: MarR_2; pfam12802 424182013694 Transcriptional regulators [Transcription]; Region: MarR; COG1846 424182013695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 424182013696 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 424182013697 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 424182013698 phosphate binding site [ion binding]; other site 424182013699 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 424182013700 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 424182013701 putative ligand binding site [chemical binding]; other site 424182013702 putative NAD binding site [chemical binding]; other site 424182013703 catalytic site [active] 424182013704 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 424182013705 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182013706 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182013707 ABC transporter; Region: ABC_tran_2; pfam12848 424182013708 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 424182013709 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 424182013710 von Willebrand factor type A domain; Region: VWA_2; pfam13519 424182013711 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 424182013712 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 424182013713 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 424182013714 Uncharacterized conserved protein [Function unknown]; Region: COG2308 424182013715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 424182013716 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 424182013717 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 424182013718 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 424182013719 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 424182013720 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 424182013721 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 424182013722 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 424182013723 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 424182013724 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 424182013725 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 424182013726 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 424182013727 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 424182013728 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 424182013729 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 424182013730 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 424182013731 putative active site [active] 424182013732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 424182013733 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182013734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182013735 DNA-binding site [nucleotide binding]; DNA binding site 424182013736 FCD domain; Region: FCD; pfam07729 424182013737 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 424182013738 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 424182013739 putative active site [active] 424182013740 metal binding site [ion binding]; metal-binding site 424182013741 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 424182013742 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 424182013743 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 424182013744 BNR repeat-like domain; Region: BNR_2; pfam13088 424182013745 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182013746 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_12; cd08491 424182013747 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182013748 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013749 dimer interface [polypeptide binding]; other site 424182013750 conserved gate region; other site 424182013751 putative PBP binding loops; other site 424182013752 ABC-ATPase subunit interface; other site 424182013753 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182013754 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013755 dimer interface [polypeptide binding]; other site 424182013756 conserved gate region; other site 424182013757 putative PBP binding loops; other site 424182013758 ABC-ATPase subunit interface; other site 424182013759 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182013760 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182013761 Walker A/P-loop; other site 424182013762 ATP binding site [chemical binding]; other site 424182013763 Q-loop/lid; other site 424182013764 ABC transporter signature motif; other site 424182013765 Walker B; other site 424182013766 D-loop; other site 424182013767 H-loop/switch region; other site 424182013768 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182013769 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182013770 Walker A/P-loop; other site 424182013771 ATP binding site [chemical binding]; other site 424182013772 Q-loop/lid; other site 424182013773 ABC transporter signature motif; other site 424182013774 Walker B; other site 424182013775 D-loop; other site 424182013776 H-loop/switch region; other site 424182013777 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182013778 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 424182013779 dihydrodipicolinate synthase; Region: dapA; TIGR00674 424182013780 inhibitor site; inhibition site 424182013781 active site 424182013782 dimer interface [polypeptide binding]; other site 424182013783 catalytic residue [active] 424182013784 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 424182013785 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 424182013786 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 424182013787 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 424182013788 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182013789 Walker A/P-loop; other site 424182013790 ATP binding site [chemical binding]; other site 424182013791 Q-loop/lid; other site 424182013792 ABC transporter signature motif; other site 424182013793 Walker B; other site 424182013794 D-loop; other site 424182013795 H-loop/switch region; other site 424182013796 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182013797 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182013798 Walker A/P-loop; other site 424182013799 ATP binding site [chemical binding]; other site 424182013800 Q-loop/lid; other site 424182013801 ABC transporter signature motif; other site 424182013802 Walker B; other site 424182013803 D-loop; other site 424182013804 H-loop/switch region; other site 424182013805 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182013806 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 424182013807 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013808 dimer interface [polypeptide binding]; other site 424182013809 conserved gate region; other site 424182013810 ABC-ATPase subunit interface; other site 424182013811 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 424182013812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013813 dimer interface [polypeptide binding]; other site 424182013814 conserved gate region; other site 424182013815 putative PBP binding loops; other site 424182013816 ABC-ATPase subunit interface; other site 424182013817 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 424182013818 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 424182013819 peptide binding site [polypeptide binding]; other site 424182013820 CHASE4 domain; Region: CHASE4; cl01308 424182013821 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182013822 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182013823 metal binding site [ion binding]; metal-binding site 424182013824 active site 424182013825 I-site; other site 424182013826 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 424182013827 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 424182013828 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 424182013829 DXD motif; other site 424182013830 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 424182013831 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182013832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 424182013833 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 424182013834 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 424182013835 oligomer interface [polypeptide binding]; other site 424182013836 metal binding site [ion binding]; metal-binding site 424182013837 metal binding site [ion binding]; metal-binding site 424182013838 putative Cl binding site [ion binding]; other site 424182013839 basic sphincter; other site 424182013840 hydrophobic gate; other site 424182013841 periplasmic entrance; other site 424182013842 hypothetical protein; Provisional; Region: PRK09897 424182013843 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 424182013844 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 424182013845 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 424182013846 MOSC domain; Region: MOSC; pfam03473 424182013847 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 424182013848 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182013849 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182013850 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182013851 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182013852 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 424182013853 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 424182013854 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182013855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013856 dimer interface [polypeptide binding]; other site 424182013857 conserved gate region; other site 424182013858 putative PBP binding loops; other site 424182013859 ABC-ATPase subunit interface; other site 424182013860 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 424182013861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013862 dimer interface [polypeptide binding]; other site 424182013863 conserved gate region; other site 424182013864 putative PBP binding loops; other site 424182013865 ABC-ATPase subunit interface; other site 424182013866 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182013867 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182013868 Walker A/P-loop; other site 424182013869 ATP binding site [chemical binding]; other site 424182013870 Q-loop/lid; other site 424182013871 ABC transporter signature motif; other site 424182013872 Walker B; other site 424182013873 D-loop; other site 424182013874 H-loop/switch region; other site 424182013875 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182013876 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182013877 Walker A/P-loop; other site 424182013878 ATP binding site [chemical binding]; other site 424182013879 Q-loop/lid; other site 424182013880 ABC transporter signature motif; other site 424182013881 Walker B; other site 424182013882 D-loop; other site 424182013883 H-loop/switch region; other site 424182013884 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182013885 Uncharacterized conserved protein [Function unknown]; Region: COG5476 424182013886 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 424182013887 MlrC C-terminus; Region: MlrC_C; pfam07171 424182013888 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182013889 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 424182013890 metal binding site [ion binding]; metal-binding site 424182013891 putative dimer interface [polypeptide binding]; other site 424182013892 hypothetical protein; Provisional; Region: PRK07338 424182013893 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 424182013894 metal binding site [ion binding]; metal-binding site 424182013895 dimer interface [polypeptide binding]; other site 424182013896 amidase; Provisional; Region: PRK07486 424182013897 Amidase; Region: Amidase; pfam01425 424182013898 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182013899 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182013900 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182013901 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182013902 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182013903 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 424182013904 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182013905 DNA binding site [nucleotide binding] 424182013906 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 424182013907 putative ligand binding site [chemical binding]; other site 424182013908 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 424182013909 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182013910 Walker A/P-loop; other site 424182013911 ATP binding site [chemical binding]; other site 424182013912 Q-loop/lid; other site 424182013913 ABC transporter signature motif; other site 424182013914 Walker B; other site 424182013915 D-loop; other site 424182013916 H-loop/switch region; other site 424182013917 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182013918 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013919 ABC-ATPase subunit interface; other site 424182013920 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182013921 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182013922 dimer interface [polypeptide binding]; other site 424182013923 conserved gate region; other site 424182013924 ABC-ATPase subunit interface; other site 424182013925 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 424182013926 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 424182013927 substrate binding pocket [chemical binding]; other site 424182013928 membrane-bound complex binding site; other site 424182013929 hinge residues; other site 424182013930 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 424182013931 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 424182013932 putative active site [active] 424182013933 Zn binding site [ion binding]; other site 424182013934 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 424182013935 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182013936 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 424182013937 active site 424182013938 ectoine utilization protein EutC; Validated; Region: PRK08291 424182013939 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 424182013940 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 424182013941 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 424182013942 tetramer interface [polypeptide binding]; other site 424182013943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182013944 catalytic residue [active] 424182013945 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 424182013946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182013947 DNA-binding site [nucleotide binding]; DNA binding site 424182013948 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 424182013949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182013950 homodimer interface [polypeptide binding]; other site 424182013951 catalytic residue [active] 424182013952 hypothetical protein; Provisional; Region: PRK07482 424182013953 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 424182013954 inhibitor-cofactor binding pocket; inhibition site 424182013955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182013956 catalytic residue [active] 424182013957 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182013958 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 424182013959 tetramerization interface [polypeptide binding]; other site 424182013960 NAD(P) binding site [chemical binding]; other site 424182013961 catalytic residues [active] 424182013962 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182013963 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 424182013964 putative DNA binding site [nucleotide binding]; other site 424182013965 putative Zn2+ binding site [ion binding]; other site 424182013966 AsnC family; Region: AsnC_trans_reg; pfam01037 424182013967 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 424182013968 putative hydrophobic ligand binding site [chemical binding]; other site 424182013969 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182013970 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182013971 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013972 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013973 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 424182013974 putative effector binding pocket; other site 424182013975 dimerization interface [polypeptide binding]; other site 424182013976 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 424182013977 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182013978 Zn binding site [ion binding]; other site 424182013979 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 424182013980 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 424182013981 Zn binding site [ion binding]; other site 424182013982 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 424182013983 Isochorismatase family; Region: Isochorismatase; pfam00857 424182013984 catalytic triad [active] 424182013985 dimer interface [polypeptide binding]; other site 424182013986 conserved cis-peptide bond; other site 424182013987 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 424182013988 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 424182013989 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 424182013990 active site 424182013991 Predicted membrane protein [Function unknown]; Region: COG2259 424182013992 Transmembrane secretion effector; Region: MFS_3; pfam05977 424182013993 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 424182013994 putative substrate translocation pore; other site 424182013995 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 424182013996 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 424182013997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182013998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182013999 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 424182014000 dimerization interface [polypeptide binding]; other site 424182014001 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 424182014002 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182014003 putative substrate translocation pore; other site 424182014004 HAMP domain; Region: HAMP; pfam00672 424182014005 dimerization interface [polypeptide binding]; other site 424182014006 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 424182014007 dimer interface [polypeptide binding]; other site 424182014008 phosphorylation site [posttranslational modification] 424182014009 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 424182014010 ATP binding site [chemical binding]; other site 424182014011 Mg2+ binding site [ion binding]; other site 424182014012 G-X-G motif; other site 424182014013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182014014 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 424182014015 active site 424182014016 phosphorylation site [posttranslational modification] 424182014017 intermolecular recognition site; other site 424182014018 dimerization interface [polypeptide binding]; other site 424182014019 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 424182014020 DNA binding site [nucleotide binding] 424182014021 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 424182014022 active site 424182014023 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 424182014024 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 424182014025 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 424182014026 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 424182014027 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 424182014028 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 424182014029 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 424182014030 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 424182014031 Coenzyme A binding pocket [chemical binding]; other site 424182014032 biotin synthase; Region: bioB; TIGR00433 424182014033 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 424182014034 FeS/SAM binding site; other site 424182014035 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 424182014036 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 424182014037 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 424182014038 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182014039 catalytic residue [active] 424182014040 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 424182014041 AAA domain; Region: AAA_26; pfam13500 424182014042 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 424182014043 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 424182014044 inhibitor-cofactor binding pocket; inhibition site 424182014045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182014046 catalytic residue [active] 424182014047 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 424182014048 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 424182014049 dimer interface [polypeptide binding]; other site 424182014050 active site 424182014051 CoA binding pocket [chemical binding]; other site 424182014052 EamA-like transporter family; Region: EamA; pfam00892 424182014053 EamA-like transporter family; Region: EamA; pfam00892 424182014054 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 424182014055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182014056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182014057 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 424182014058 dimerization interface [polypeptide binding]; other site 424182014059 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182014060 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 424182014061 AsnC family; Region: AsnC_trans_reg; pfam01037 424182014062 Arginase family; Region: Arginase; cd09989 424182014063 active site 424182014064 Mn binding site [ion binding]; other site 424182014065 oligomer interface [polypeptide binding]; other site 424182014066 ornithine cyclodeaminase; Validated; Region: PRK07589 424182014067 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 424182014068 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182014069 EamA-like transporter family; Region: EamA; pfam00892 424182014070 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182014071 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182014072 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182014073 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 424182014074 cyclase homology domain; Region: CHD; cd07302 424182014075 nucleotidyl binding site; other site 424182014076 metal binding site [ion binding]; metal-binding site 424182014077 dimer interface [polypeptide binding]; other site 424182014078 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182014079 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 424182014080 non-specific DNA binding site [nucleotide binding]; other site 424182014081 salt bridge; other site 424182014082 sequence-specific DNA binding site [nucleotide binding]; other site 424182014083 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 424182014084 HTH DNA binding domain; Region: HTH_13; pfam11972 424182014085 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 424182014086 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 424182014087 putative substrate translocation pore; other site 424182014088 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182014089 HAMP domain; Region: HAMP; pfam00672 424182014090 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 424182014091 dimer interface [polypeptide binding]; other site 424182014092 phosphorylation site [posttranslational modification] 424182014093 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 424182014094 ATP binding site [chemical binding]; other site 424182014095 Mg2+ binding site [ion binding]; other site 424182014096 G-X-G motif; other site 424182014097 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182014098 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 424182014099 active site 424182014100 phosphorylation site [posttranslational modification] 424182014101 intermolecular recognition site; other site 424182014102 dimerization interface [polypeptide binding]; other site 424182014103 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 424182014104 DNA binding site [nucleotide binding] 424182014105 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 424182014106 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 424182014107 Sulfatase; Region: Sulfatase; pfam00884 424182014108 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 424182014109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182014110 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 424182014111 dimerization interface [polypeptide binding]; other site 424182014112 substrate binding pocket [chemical binding]; other site 424182014113 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 424182014114 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 424182014115 N-terminal plug; other site 424182014116 ligand-binding site [chemical binding]; other site 424182014117 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 424182014118 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 424182014119 siderophore binding site; other site 424182014120 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 424182014121 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 424182014122 ABC-ATPase subunit interface; other site 424182014123 dimer interface [polypeptide binding]; other site 424182014124 putative PBP binding regions; other site 424182014125 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 424182014126 ABC-ATPase subunit interface; other site 424182014127 dimer interface [polypeptide binding]; other site 424182014128 putative PBP binding regions; other site 424182014129 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 424182014130 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 424182014131 Walker A/P-loop; other site 424182014132 ATP binding site [chemical binding]; other site 424182014133 Q-loop/lid; other site 424182014134 ABC transporter signature motif; other site 424182014135 Walker B; other site 424182014136 D-loop; other site 424182014137 H-loop/switch region; other site 424182014138 Protein of unknown function (DUF992); Region: DUF992; pfam06186 424182014139 Cytochrome c2 [Energy production and conversion]; Region: COG3474 424182014140 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 424182014141 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 424182014142 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 424182014143 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182014144 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 424182014145 TM-ABC transporter signature motif; other site 424182014146 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182014147 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 424182014148 TM-ABC transporter signature motif; other site 424182014149 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182014150 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182014151 Walker A/P-loop; other site 424182014152 ATP binding site [chemical binding]; other site 424182014153 Q-loop/lid; other site 424182014154 ABC transporter signature motif; other site 424182014155 Walker B; other site 424182014156 D-loop; other site 424182014157 H-loop/switch region; other site 424182014158 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182014159 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 424182014160 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182014161 GAF domain; Region: GAF; pfam01590 424182014162 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 424182014163 Histidine kinase; Region: HisKA_3; pfam07730 424182014164 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 424182014165 Mg2+ binding site [ion binding]; other site 424182014166 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182014167 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 424182014168 active site 424182014169 phosphorylation site [posttranslational modification] 424182014170 intermolecular recognition site; other site 424182014171 dimerization interface [polypeptide binding]; other site 424182014172 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 424182014173 DNA binding residues [nucleotide binding] 424182014174 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 424182014175 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 424182014176 active site 424182014177 DNA binding site [nucleotide binding] 424182014178 Int/Topo IB signature motif; other site 424182014179 catalytic residues [active] 424182014180 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 424182014181 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 424182014182 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 424182014183 S-adenosylmethionine binding site [chemical binding]; other site 424182014184 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 424182014185 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 424182014186 active site 424182014187 Uncharacterized conserved protein [Function unknown]; Region: COG1739 424182014188 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 424182014189 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 424182014190 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 424182014191 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 424182014192 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 424182014193 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182014194 Walker A/P-loop; other site 424182014195 ATP binding site [chemical binding]; other site 424182014196 Q-loop/lid; other site 424182014197 ABC transporter signature motif; other site 424182014198 Walker B; other site 424182014199 D-loop; other site 424182014200 H-loop/switch region; other site 424182014201 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; cd02205 424182014202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014203 dimer interface [polypeptide binding]; other site 424182014204 conserved gate region; other site 424182014205 putative PBP binding loops; other site 424182014206 ABC-ATPase subunit interface; other site 424182014207 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 424182014208 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 424182014209 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 424182014210 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 424182014211 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 424182014212 putative active site [active] 424182014213 heme pocket [chemical binding]; other site 424182014214 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 424182014215 putative active site [active] 424182014216 heme pocket [chemical binding]; other site 424182014217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 424182014218 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 424182014219 dimer interface [polypeptide binding]; other site 424182014220 phosphorylation site [posttranslational modification] 424182014221 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 424182014222 ATP binding site [chemical binding]; other site 424182014223 Mg2+ binding site [ion binding]; other site 424182014224 G-X-G motif; other site 424182014225 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 424182014226 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 424182014227 active site 424182014228 phosphorylation site [posttranslational modification] 424182014229 intermolecular recognition site; other site 424182014230 dimerization interface [polypeptide binding]; other site 424182014231 Response regulator receiver domain; Region: Response_reg; pfam00072 424182014232 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 424182014233 active site 424182014234 phosphorylation site [posttranslational modification] 424182014235 intermolecular recognition site; other site 424182014236 dimerization interface [polypeptide binding]; other site 424182014237 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 424182014238 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 424182014239 putative ligand binding site [chemical binding]; other site 424182014240 NAD binding site [chemical binding]; other site 424182014241 dimerization interface [polypeptide binding]; other site 424182014242 catalytic site [active] 424182014243 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 424182014244 Chain length determinant protein; Region: Wzz; cl15801 424182014245 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 424182014246 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 424182014247 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 424182014248 active site 424182014249 tetramer interface; other site 424182014250 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 424182014251 active site 424182014252 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 424182014253 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 424182014254 active site 424182014255 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 424182014256 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 424182014257 Ligand binding site; other site 424182014258 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 424182014259 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 424182014260 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 424182014261 active site 424182014262 active site 424182014263 catalytic residues [active] 424182014264 Acyltransferase family; Region: Acyl_transf_3; pfam01757 424182014265 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 424182014266 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 424182014267 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 424182014268 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 424182014269 active site 424182014270 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 424182014271 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 424182014272 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 424182014273 active site 424182014274 Exopolysaccharide production repressor; Region: SyrA; pfam11089 424182014275 TPR repeat; Region: TPR_11; pfam13414 424182014276 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 424182014277 TPR motif; other site 424182014278 binding surface 424182014279 TPR repeat; Region: TPR_11; pfam13414 424182014280 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 424182014281 binding surface 424182014282 TPR motif; other site 424182014283 TPR repeat; Region: TPR_11; pfam13414 424182014284 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 424182014285 binding surface 424182014286 TPR motif; other site 424182014287 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 424182014288 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 424182014289 hydroxyglutarate oxidase; Provisional; Region: PRK11728 424182014290 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 424182014291 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 424182014292 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 424182014293 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 424182014294 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 424182014295 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 424182014296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4427 424182014297 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 424182014298 putative active site [active] 424182014299 putative catalytic site [active] 424182014300 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 424182014301 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 424182014302 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 424182014303 active site 424182014304 catalytic site [active] 424182014305 phosphoglucomutase; Region: PLN02307 424182014306 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 424182014307 substrate binding site [chemical binding]; other site 424182014308 dimer interface [polypeptide binding]; other site 424182014309 active site 424182014310 metal binding site [ion binding]; metal-binding site 424182014311 glycogen synthase; Provisional; Region: glgA; PRK00654 424182014312 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 424182014313 ADP-binding pocket [chemical binding]; other site 424182014314 homodimer interface [polypeptide binding]; other site 424182014315 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 424182014316 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 424182014317 ligand binding site; other site 424182014318 oligomer interface; other site 424182014319 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 424182014320 dimer interface [polypeptide binding]; other site 424182014321 N-terminal domain interface [polypeptide binding]; other site 424182014322 sulfate 1 binding site; other site 424182014323 glycogen branching enzyme; Provisional; Region: PRK05402 424182014324 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 424182014325 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 424182014326 active site 424182014327 catalytic site [active] 424182014328 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 424182014329 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 424182014330 homodimer interface [polypeptide binding]; other site 424182014331 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 424182014332 active site pocket [active] 424182014333 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 424182014334 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 424182014335 putative active site [active] 424182014336 putative dimer interface [polypeptide binding]; other site 424182014337 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 424182014338 aspartate racemase; Region: asp_race; TIGR00035 424182014339 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182014340 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 424182014341 putative DNA binding site [nucleotide binding]; other site 424182014342 putative Zn2+ binding site [ion binding]; other site 424182014343 AsnC family; Region: AsnC_trans_reg; pfam01037 424182014344 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 424182014345 active site 424182014346 catalytic residues [active] 424182014347 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 424182014348 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 424182014349 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 424182014350 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 424182014351 NADP binding site [chemical binding]; other site 424182014352 homodimer interface [polypeptide binding]; other site 424182014353 active site 424182014354 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 424182014355 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 424182014356 putative NAD(P) binding site [chemical binding]; other site 424182014357 catalytic Zn binding site [ion binding]; other site 424182014358 Predicted transcriptional regulators [Transcription]; Region: COG1510 424182014359 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 424182014360 dimerization interface [polypeptide binding]; other site 424182014361 putative Zn2+ binding site [ion binding]; other site 424182014362 putative DNA binding site [nucleotide binding]; other site 424182014363 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 424182014364 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182014365 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 424182014366 Walker A/P-loop; other site 424182014367 ATP binding site [chemical binding]; other site 424182014368 Q-loop/lid; other site 424182014369 ABC transporter signature motif; other site 424182014370 Walker B; other site 424182014371 D-loop; other site 424182014372 H-loop/switch region; other site 424182014373 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 424182014374 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 424182014375 Walker A/P-loop; other site 424182014376 ATP binding site [chemical binding]; other site 424182014377 Q-loop/lid; other site 424182014378 ABC transporter signature motif; other site 424182014379 Walker B; other site 424182014380 D-loop; other site 424182014381 H-loop/switch region; other site 424182014382 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 424182014383 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 424182014384 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 424182014385 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 424182014386 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 424182014387 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 424182014388 Predicted membrane protein [Function unknown]; Region: COG2261 424182014389 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 424182014390 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 424182014391 dimerization interface [polypeptide binding]; other site 424182014392 active site 424182014393 L-aspartate oxidase; Provisional; Region: PRK07512 424182014394 L-aspartate oxidase; Provisional; Region: PRK06175 424182014395 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 424182014396 quinolinate synthetase; Provisional; Region: PRK09375 424182014397 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 424182014398 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 424182014399 putative active site [active] 424182014400 heme pocket [chemical binding]; other site 424182014401 PAS fold; Region: PAS_3; pfam08447 424182014402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 424182014403 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 424182014404 cytidylate kinase; Provisional; Region: cmk; PRK00023 424182014405 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 424182014406 CMP-binding site; other site 424182014407 The sites determining sugar specificity; other site 424182014408 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 424182014409 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 424182014410 RNA binding site [nucleotide binding]; other site 424182014411 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 424182014412 RNA binding site [nucleotide binding]; other site 424182014413 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 424182014414 RNA binding site [nucleotide binding]; other site 424182014415 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 424182014416 RNA binding site [nucleotide binding]; other site 424182014417 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 424182014418 RNA binding site [nucleotide binding]; other site 424182014419 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 424182014420 RNA binding site [nucleotide binding]; other site 424182014421 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 424182014422 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 424182014423 catalytic site [active] 424182014424 putative active site [active] 424182014425 putative substrate binding site [chemical binding]; other site 424182014426 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 424182014427 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 424182014428 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 424182014429 putative NAD(P) binding site [chemical binding]; other site 424182014430 homodimer interface [polypeptide binding]; other site 424182014431 homotetramer interface [polypeptide binding]; other site 424182014432 active site 424182014433 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 424182014434 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 424182014435 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; cl00279 424182014436 active site 424182014437 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182014438 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 424182014439 peptide binding site [polypeptide binding]; other site 424182014440 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182014441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014442 dimer interface [polypeptide binding]; other site 424182014443 conserved gate region; other site 424182014444 putative PBP binding loops; other site 424182014445 ABC-ATPase subunit interface; other site 424182014446 dipeptide transporter; Provisional; Region: PRK10913 424182014447 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014448 putative PBP binding loops; other site 424182014449 dimer interface [polypeptide binding]; other site 424182014450 ABC-ATPase subunit interface; other site 424182014451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182014452 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 424182014453 Walker A/P-loop; other site 424182014454 ATP binding site [chemical binding]; other site 424182014455 Q-loop/lid; other site 424182014456 ABC transporter signature motif; other site 424182014457 Walker B; other site 424182014458 D-loop; other site 424182014459 H-loop/switch region; other site 424182014460 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182014461 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 424182014462 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182014463 Walker A/P-loop; other site 424182014464 ATP binding site [chemical binding]; other site 424182014465 Q-loop/lid; other site 424182014466 ABC transporter signature motif; other site 424182014467 Walker B; other site 424182014468 D-loop; other site 424182014469 H-loop/switch region; other site 424182014470 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182014471 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 424182014472 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 424182014473 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 424182014474 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182014475 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182014476 DNA-binding site [nucleotide binding]; DNA binding site 424182014477 FCD domain; Region: FCD; pfam07729 424182014478 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182014479 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 424182014480 active site pocket [active] 424182014481 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 424182014482 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 424182014483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182014484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182014485 LysR substrate binding domain; Region: LysR_substrate; pfam03466 424182014486 dimerization interface [polypeptide binding]; other site 424182014487 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 424182014488 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 424182014489 putative ligand binding site [chemical binding]; other site 424182014490 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182014491 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 424182014492 Walker A/P-loop; other site 424182014493 ATP binding site [chemical binding]; other site 424182014494 Q-loop/lid; other site 424182014495 ABC transporter signature motif; other site 424182014496 Walker B; other site 424182014497 D-loop; other site 424182014498 H-loop/switch region; other site 424182014499 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 424182014500 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 424182014501 Walker A/P-loop; other site 424182014502 ATP binding site [chemical binding]; other site 424182014503 Q-loop/lid; other site 424182014504 ABC transporter signature motif; other site 424182014505 Walker B; other site 424182014506 D-loop; other site 424182014507 H-loop/switch region; other site 424182014508 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182014509 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 424182014510 TM-ABC transporter signature motif; other site 424182014511 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 424182014512 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 424182014513 TM-ABC transporter signature motif; other site 424182014514 choline dehydrogenase; Validated; Region: PRK02106 424182014515 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 424182014516 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 424182014517 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 424182014518 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 424182014519 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 424182014520 acyl-activating enzyme (AAE) consensus motif; other site 424182014521 AMP binding site [chemical binding]; other site 424182014522 active site 424182014523 CoA binding site [chemical binding]; other site 424182014524 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 424182014525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182014526 NAD(P) binding site [chemical binding]; other site 424182014527 active site 424182014528 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 424182014529 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 424182014530 Trp docking motif [polypeptide binding]; other site 424182014531 putative active site [active] 424182014532 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 424182014533 dimerization interface [polypeptide binding]; other site 424182014534 metal binding site [ion binding]; metal-binding site 424182014535 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 424182014536 MgtC family; Region: MgtC; pfam02308 424182014537 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182014538 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182014539 TIGR02588 family protein; Region: TIGR02588 424182014540 putative integral membrane protein TIGR02587; Region: TIGR02587 424182014541 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 424182014542 beta-D-glucuronidase; Provisional; Region: PRK10150 424182014543 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 424182014544 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 424182014545 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 424182014546 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 424182014547 aminoglycoside resistance protein; Provisional; Region: PRK13746 424182014548 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 424182014549 active site 424182014550 NTP binding site [chemical binding]; other site 424182014551 metal binding triad [ion binding]; metal-binding site 424182014552 antibiotic binding site [chemical binding]; other site 424182014553 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 424182014554 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 424182014555 trimer interface [polypeptide binding]; other site 424182014556 putative Zn binding site [ion binding]; other site 424182014557 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 424182014558 intracellular protease, PfpI family; Region: PfpI; TIGR01382 424182014559 proposed catalytic triad [active] 424182014560 conserved cys residue [active] 424182014561 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 424182014562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3930 424182014563 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 424182014564 glutathione synthetase; Provisional; Region: PRK12458 424182014565 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 424182014566 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182014567 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 424182014568 putative NAD(P) binding site [chemical binding]; other site 424182014569 active site 424182014570 putative substrate binding site [chemical binding]; other site 424182014571 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 424182014572 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 424182014573 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 424182014574 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 424182014575 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182014576 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 424182014577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182014578 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 424182014579 dimerization interface [polypeptide binding]; other site 424182014580 substrate binding pocket [chemical binding]; other site 424182014581 aldehyde dehydrogenase family 7 member; Region: PLN02315 424182014582 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 424182014583 tetrameric interface [polypeptide binding]; other site 424182014584 NAD binding site [chemical binding]; other site 424182014585 catalytic residues [active] 424182014586 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 424182014587 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 424182014588 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182014589 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014590 dimer interface [polypeptide binding]; other site 424182014591 conserved gate region; other site 424182014592 ABC-ATPase subunit interface; other site 424182014593 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 424182014594 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182014595 Walker A/P-loop; other site 424182014596 ATP binding site [chemical binding]; other site 424182014597 Q-loop/lid; other site 424182014598 ABC transporter signature motif; other site 424182014599 Walker B; other site 424182014600 D-loop; other site 424182014601 H-loop/switch region; other site 424182014602 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 424182014603 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 424182014604 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 424182014605 Glutamate binding site [chemical binding]; other site 424182014606 NAD binding site [chemical binding]; other site 424182014607 catalytic residues [active] 424182014608 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 424182014609 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 424182014610 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 424182014611 putative DNA binding site [nucleotide binding]; other site 424182014612 putative Zn2+ binding site [ion binding]; other site 424182014613 AsnC family; Region: AsnC_trans_reg; pfam01037 424182014614 RNA polymerase sigma factor; Provisional; Region: PRK12547 424182014615 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182014616 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 424182014617 DNA binding residues [nucleotide binding] 424182014618 two-component response regulator; Provisional; Region: PRK09191 424182014619 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 424182014620 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 424182014621 active site 424182014622 phosphorylation site [posttranslational modification] 424182014623 intermolecular recognition site; other site 424182014624 dimerization interface [polypeptide binding]; other site 424182014625 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 424182014626 HWE histidine kinase; Region: HWE_HK; pfam07536 424182014627 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 424182014628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 424182014629 HWE histidine kinase; Region: HWE_HK; smart00911 424182014630 PRC-barrel domain; Region: PRC; pfam05239 424182014631 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 424182014632 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 424182014633 NAD binding site [chemical binding]; other site 424182014634 homodimer interface [polypeptide binding]; other site 424182014635 active site 424182014636 substrate binding site [chemical binding]; other site 424182014637 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 424182014638 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 424182014639 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 424182014640 dimer interface [polypeptide binding]; other site 424182014641 active site 424182014642 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 424182014643 catalytic residues [active] 424182014644 substrate binding site [chemical binding]; other site 424182014645 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 424182014646 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 424182014647 NAD(P) binding pocket [chemical binding]; other site 424182014648 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 424182014649 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 424182014650 ATP binding site [chemical binding]; other site 424182014651 Mg++ binding site [ion binding]; other site 424182014652 motif III; other site 424182014653 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 424182014654 nucleotide binding region [chemical binding]; other site 424182014655 ATP-binding site [chemical binding]; other site 424182014656 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 424182014657 RNA binding site [nucleotide binding]; other site 424182014658 aspartate kinase; Reviewed; Region: PRK06635 424182014659 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 424182014660 putative nucleotide binding site [chemical binding]; other site 424182014661 putative catalytic residues [active] 424182014662 putative Mg ion binding site [ion binding]; other site 424182014663 putative aspartate binding site [chemical binding]; other site 424182014664 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 424182014665 putative allosteric regulatory site; other site 424182014666 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 424182014667 putative allosteric regulatory residue; other site 424182014668 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 424182014669 GAF domain; Region: GAF; pfam01590 424182014670 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 424182014671 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 424182014672 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 424182014673 peptide chain release factor 1; Validated; Region: prfA; PRK00591 424182014674 This domain is found in peptide chain release factors; Region: PCRF; smart00937 424182014675 RF-1 domain; Region: RF-1; pfam00472 424182014676 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 424182014677 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 424182014678 S-adenosylmethionine binding site [chemical binding]; other site 424182014679 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 424182014680 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 424182014681 Clp amino terminal domain; Region: Clp_N; pfam02861 424182014682 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 424182014683 Walker A motif; other site 424182014684 ATP binding site [chemical binding]; other site 424182014685 Walker B motif; other site 424182014686 arginine finger; other site 424182014687 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 424182014688 Walker A motif; other site 424182014689 ATP binding site [chemical binding]; other site 424182014690 Walker B motif; other site 424182014691 arginine finger; other site 424182014692 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 424182014693 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 424182014694 Peptidase family M23; Region: Peptidase_M23; pfam01551 424182014695 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 424182014696 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 424182014697 carboxyltransferase (CT) interaction site; other site 424182014698 biotinylation site [posttranslational modification]; other site 424182014699 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 424182014700 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 424182014701 ATP-grasp domain; Region: ATP-grasp_4; cl17255 424182014702 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 424182014703 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 424182014704 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 424182014705 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 424182014706 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 424182014707 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 424182014708 putative active site [active] 424182014709 aspartate aminotransferase; Provisional; Region: PRK05764 424182014710 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 424182014711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182014712 homodimer interface [polypeptide binding]; other site 424182014713 catalytic residue [active] 424182014714 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 424182014715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182014716 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 424182014717 putative dimerization interface [polypeptide binding]; other site 424182014718 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 424182014719 classical (c) SDRs; Region: SDR_c; cd05233 424182014720 NAD(P) binding site [chemical binding]; other site 424182014721 active site 424182014722 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182014723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014724 dimer interface [polypeptide binding]; other site 424182014725 conserved gate region; other site 424182014726 putative PBP binding loops; other site 424182014727 ABC-ATPase subunit interface; other site 424182014728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014729 dimer interface [polypeptide binding]; other site 424182014730 conserved gate region; other site 424182014731 putative PBP binding loops; other site 424182014732 ABC-ATPase subunit interface; other site 424182014733 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182014734 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182014735 Walker A/P-loop; other site 424182014736 ATP binding site [chemical binding]; other site 424182014737 Q-loop/lid; other site 424182014738 ABC transporter signature motif; other site 424182014739 Walker B; other site 424182014740 D-loop; other site 424182014741 H-loop/switch region; other site 424182014742 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182014743 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 424182014744 substrate binding pocket [chemical binding]; other site 424182014745 membrane-bound complex binding site; other site 424182014746 hinge residues; other site 424182014747 hypothetical protein; Validated; Region: PRK06201 424182014748 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 424182014749 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182014750 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182014751 Walker A/P-loop; other site 424182014752 ATP binding site [chemical binding]; other site 424182014753 Q-loop/lid; other site 424182014754 ABC transporter signature motif; other site 424182014755 Walker B; other site 424182014756 D-loop; other site 424182014757 H-loop/switch region; other site 424182014758 TOBE domain; Region: TOBE_2; pfam08402 424182014759 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 424182014760 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 424182014761 inhibitor binding site; inhibition site 424182014762 catalytic Zn binding site [ion binding]; other site 424182014763 structural Zn binding site [ion binding]; other site 424182014764 NADP binding site [chemical binding]; other site 424182014765 tetramer interface [polypeptide binding]; other site 424182014766 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182014767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014768 dimer interface [polypeptide binding]; other site 424182014769 conserved gate region; other site 424182014770 putative PBP binding loops; other site 424182014771 ABC-ATPase subunit interface; other site 424182014772 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182014773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014774 dimer interface [polypeptide binding]; other site 424182014775 conserved gate region; other site 424182014776 putative PBP binding loops; other site 424182014777 ABC-ATPase subunit interface; other site 424182014778 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182014779 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182014780 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182014781 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 424182014782 Helix-turn-helix domain; Region: HTH_18; pfam12833 424182014783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182014784 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 424182014785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182014786 NAD(P) binding site [chemical binding]; other site 424182014787 active site 424182014788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 424182014789 Putative glucoamylase; Region: Glycoamylase; pfam10091 424182014790 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 424182014791 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 424182014792 Walker A/P-loop; other site 424182014793 ATP binding site [chemical binding]; other site 424182014794 Q-loop/lid; other site 424182014795 ABC transporter signature motif; other site 424182014796 Walker B; other site 424182014797 D-loop; other site 424182014798 H-loop/switch region; other site 424182014799 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 424182014800 FtsX-like permease family; Region: FtsX; pfam02687 424182014801 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 424182014802 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 424182014803 FtsX-like permease family; Region: FtsX; pfam02687 424182014804 Predicted secreted hydrolase [General function prediction only]; Region: COG5621 424182014805 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 424182014806 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 424182014807 conserved cys residue [active] 424182014808 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182014809 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 424182014810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182014811 NAD(P) binding site [chemical binding]; other site 424182014812 active site 424182014813 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 424182014814 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 424182014815 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 424182014816 NAD binding site [chemical binding]; other site 424182014817 catalytic Zn binding site [ion binding]; other site 424182014818 substrate binding site [chemical binding]; other site 424182014819 structural Zn binding site [ion binding]; other site 424182014820 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 424182014821 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 424182014822 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 424182014823 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 424182014824 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182014825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014826 dimer interface [polypeptide binding]; other site 424182014827 conserved gate region; other site 424182014828 putative PBP binding loops; other site 424182014829 ABC-ATPase subunit interface; other site 424182014830 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 424182014831 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 424182014832 Walker A/P-loop; other site 424182014833 ATP binding site [chemical binding]; other site 424182014834 Q-loop/lid; other site 424182014835 ABC transporter signature motif; other site 424182014836 Walker B; other site 424182014837 D-loop; other site 424182014838 H-loop/switch region; other site 424182014839 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182014840 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182014841 DNA-binding site [nucleotide binding]; DNA binding site 424182014842 FCD domain; Region: FCD; pfam07729 424182014843 SnoaL-like domain; Region: SnoaL_2; pfam12680 424182014844 cytosine deaminase; Provisional; Region: PRK05985 424182014845 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 424182014846 active site 424182014847 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 424182014848 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 424182014849 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 424182014850 active site 424182014851 catalytic site [active] 424182014852 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 424182014853 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 424182014854 Fatty acid desaturase; Region: FA_desaturase; pfam00487 424182014855 putative di-iron ligands [ion binding]; other site 424182014856 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 424182014857 Uncharacterized protein conserved in archaea (DUF2099); Region: DUF2099; cl01645 424182014858 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 424182014859 active sites [active] 424182014860 tetramer interface [polypeptide binding]; other site 424182014861 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 424182014862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182014863 DNA-binding site [nucleotide binding]; DNA binding site 424182014864 UTRA domain; Region: UTRA; pfam07702 424182014865 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 424182014866 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182014867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014868 dimer interface [polypeptide binding]; other site 424182014869 conserved gate region; other site 424182014870 ABC-ATPase subunit interface; other site 424182014871 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 424182014872 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 424182014873 Walker A/P-loop; other site 424182014874 ATP binding site [chemical binding]; other site 424182014875 Q-loop/lid; other site 424182014876 ABC transporter signature motif; other site 424182014877 Walker B; other site 424182014878 D-loop; other site 424182014879 H-loop/switch region; other site 424182014880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 424182014881 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 424182014882 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 424182014883 short chain dehydrogenase; Provisional; Region: PRK06701 424182014884 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 424182014885 NAD binding site [chemical binding]; other site 424182014886 metal binding site [ion binding]; metal-binding site 424182014887 active site 424182014888 thiamine pyrophosphate protein; Provisional; Region: PRK08273 424182014889 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 424182014890 PYR/PP interface [polypeptide binding]; other site 424182014891 dimer interface [polypeptide binding]; other site 424182014892 tetramer interface [polypeptide binding]; other site 424182014893 TPP binding site [chemical binding]; other site 424182014894 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 424182014895 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 424182014896 TPP-binding site [chemical binding]; other site 424182014897 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 424182014898 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 424182014899 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 424182014900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182014901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182014902 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 424182014903 putative dimerization interface [polypeptide binding]; other site 424182014904 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 424182014905 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 424182014906 inhibitor-cofactor binding pocket; inhibition site 424182014907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182014908 catalytic residue [active] 424182014909 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; cl01053 424182014910 active site 424182014911 catalytic triad [active] 424182014912 oxyanion hole [active] 424182014913 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 424182014914 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 424182014915 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 424182014916 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 424182014917 inhibitor site; inhibition site 424182014918 active site 424182014919 dimer interface [polypeptide binding]; other site 424182014920 catalytic residue [active] 424182014921 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 424182014922 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182014923 active site pocket [active] 424182014924 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182014925 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182014926 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182014927 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014928 dimer interface [polypeptide binding]; other site 424182014929 conserved gate region; other site 424182014930 putative PBP binding loops; other site 424182014931 ABC-ATPase subunit interface; other site 424182014932 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182014933 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014934 putative PBP binding loops; other site 424182014935 dimer interface [polypeptide binding]; other site 424182014936 ABC-ATPase subunit interface; other site 424182014937 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182014938 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182014939 Walker A/P-loop; other site 424182014940 ATP binding site [chemical binding]; other site 424182014941 Q-loop/lid; other site 424182014942 ABC transporter signature motif; other site 424182014943 Walker B; other site 424182014944 D-loop; other site 424182014945 H-loop/switch region; other site 424182014946 TOBE domain; Region: TOBE_2; pfam08402 424182014947 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182014948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182014949 NAD(P) binding site [chemical binding]; other site 424182014950 active site 424182014951 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182014952 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 424182014953 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182014954 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 424182014955 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182014956 classical (c) SDRs; Region: SDR_c; cd05233 424182014957 NAD(P) binding site [chemical binding]; other site 424182014958 active site 424182014959 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182014960 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 424182014961 putative substrate translocation pore; other site 424182014962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 424182014963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 424182014964 PAS fold; Region: PAS_7; pfam12860 424182014965 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 424182014966 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 424182014967 dimer interface [polypeptide binding]; other site 424182014968 phosphorylation site [posttranslational modification] 424182014969 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 424182014970 ATP binding site [chemical binding]; other site 424182014971 Mg2+ binding site [ion binding]; other site 424182014972 G-X-G motif; other site 424182014973 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 424182014974 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 424182014975 active site 424182014976 phosphorylation site [posttranslational modification] 424182014977 intermolecular recognition site; other site 424182014978 dimerization interface [polypeptide binding]; other site 424182014979 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 424182014980 DNA binding site [nucleotide binding] 424182014981 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182014982 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182014983 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 424182014984 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182014985 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 424182014986 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014987 dimer interface [polypeptide binding]; other site 424182014988 conserved gate region; other site 424182014989 putative PBP binding loops; other site 424182014990 ABC-ATPase subunit interface; other site 424182014991 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182014992 dimer interface [polypeptide binding]; other site 424182014993 conserved gate region; other site 424182014994 putative PBP binding loops; other site 424182014995 ABC-ATPase subunit interface; other site 424182014996 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182014997 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182014998 Walker A/P-loop; other site 424182014999 ATP binding site [chemical binding]; other site 424182015000 Q-loop/lid; other site 424182015001 ABC transporter signature motif; other site 424182015002 Walker B; other site 424182015003 D-loop; other site 424182015004 H-loop/switch region; other site 424182015005 TOBE domain; Region: TOBE_2; pfam08402 424182015006 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 424182015007 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 424182015008 inhibitor binding site; inhibition site 424182015009 catalytic Zn binding site [ion binding]; other site 424182015010 structural Zn binding site [ion binding]; other site 424182015011 NADP binding site [chemical binding]; other site 424182015012 tetramer interface [polypeptide binding]; other site 424182015013 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 424182015014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182015015 Helix-turn-helix domain; Region: HTH_18; pfam12833 424182015016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182015017 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 424182015018 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182015019 putative ligand binding site [chemical binding]; other site 424182015020 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182015021 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182015022 Walker A/P-loop; other site 424182015023 ATP binding site [chemical binding]; other site 424182015024 Q-loop/lid; other site 424182015025 ABC transporter signature motif; other site 424182015026 Walker B; other site 424182015027 D-loop; other site 424182015028 H-loop/switch region; other site 424182015029 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182015030 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182015031 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 424182015032 TM-ABC transporter signature motif; other site 424182015033 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 424182015034 classical (c) SDRs; Region: SDR_c; cd05233 424182015035 NAD(P) binding site [chemical binding]; other site 424182015036 active site 424182015037 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 424182015038 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 424182015039 N- and C-terminal domain interface [polypeptide binding]; other site 424182015040 active site 424182015041 MgATP binding site [chemical binding]; other site 424182015042 catalytic site [active] 424182015043 metal binding site [ion binding]; metal-binding site 424182015044 carbohydrate binding site [chemical binding]; other site 424182015045 putative homodimer interface [polypeptide binding]; other site 424182015046 short chain dehydrogenase; Provisional; Region: PRK07060 424182015047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182015048 NAD(P) binding site [chemical binding]; other site 424182015049 active site 424182015050 proline/glycine betaine transporter; Provisional; Region: PRK10642 424182015051 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 424182015052 putative substrate translocation pore; other site 424182015053 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182015054 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 424182015055 active site 424182015056 dimerization interface [polypeptide binding]; other site 424182015057 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 424182015058 active site 424182015059 catalytic residues [active] 424182015060 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 424182015061 active site 424182015062 metal binding site [ion binding]; metal-binding site 424182015063 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 424182015064 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 424182015065 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 424182015066 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 424182015067 PhoU domain; Region: PhoU; pfam01895 424182015068 PhoU domain; Region: PhoU; pfam01895 424182015069 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182015070 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182015071 DNA binding site [nucleotide binding] 424182015072 domain linker motif; other site 424182015073 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 424182015074 putative dimerization interface [polypeptide binding]; other site 424182015075 putative ligand binding site [chemical binding]; other site 424182015076 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 424182015077 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015078 dimer interface [polypeptide binding]; other site 424182015079 conserved gate region; other site 424182015080 putative PBP binding loops; other site 424182015081 ABC-ATPase subunit interface; other site 424182015082 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015083 dimer interface [polypeptide binding]; other site 424182015084 conserved gate region; other site 424182015085 putative PBP binding loops; other site 424182015086 ABC-ATPase subunit interface; other site 424182015087 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182015088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182015089 Walker A/P-loop; other site 424182015090 ATP binding site [chemical binding]; other site 424182015091 Q-loop/lid; other site 424182015092 ABC transporter signature motif; other site 424182015093 Walker B; other site 424182015094 D-loop; other site 424182015095 H-loop/switch region; other site 424182015096 TOBE domain; Region: TOBE_2; pfam08402 424182015097 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182015098 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182015099 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182015100 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182015101 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 424182015102 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182015103 active site 424182015104 dimerization interface [polypeptide binding]; other site 424182015105 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 424182015106 active site 424182015107 catalytic residues [active] 424182015108 succinic semialdehyde dehydrogenase; Region: PLN02278 424182015109 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 424182015110 tetramerization interface [polypeptide binding]; other site 424182015111 NAD(P) binding site [chemical binding]; other site 424182015112 catalytic residues [active] 424182015113 tartrate dehydrogenase; Region: TTC; TIGR02089 424182015114 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 424182015115 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 424182015116 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182015117 NAD(P) binding site [chemical binding]; other site 424182015118 catalytic residues [active] 424182015119 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 424182015120 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 424182015121 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 424182015122 putative ligand binding site [chemical binding]; other site 424182015123 NAD binding site [chemical binding]; other site 424182015124 dimerization interface [polypeptide binding]; other site 424182015125 catalytic site [active] 424182015126 acetylornithine deacetylase; Provisional; Region: PRK07522 424182015127 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 424182015128 metal binding site [ion binding]; metal-binding site 424182015129 putative dimer interface [polypeptide binding]; other site 424182015130 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 424182015131 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 424182015132 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 424182015133 putative ligand binding residues [chemical binding]; other site 424182015134 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 424182015135 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 424182015136 ABC-ATPase subunit interface; other site 424182015137 dimer interface [polypeptide binding]; other site 424182015138 putative PBP binding regions; other site 424182015139 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 424182015140 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 424182015141 Walker A/P-loop; other site 424182015142 ATP binding site [chemical binding]; other site 424182015143 Q-loop/lid; other site 424182015144 ABC transporter signature motif; other site 424182015145 Walker B; other site 424182015146 D-loop; other site 424182015147 H-loop/switch region; other site 424182015148 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 424182015149 pseudoazurin; Region: pseudoazurin; TIGR02375 424182015150 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 424182015151 S-adenosylmethionine binding site [chemical binding]; other site 424182015152 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 424182015153 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 424182015154 putative ligand binding residues [chemical binding]; other site 424182015155 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 424182015156 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 424182015157 putative ligand binding residues [chemical binding]; other site 424182015158 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 424182015159 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 424182015160 ABC-ATPase subunit interface; other site 424182015161 dimer interface [polypeptide binding]; other site 424182015162 putative PBP binding regions; other site 424182015163 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 424182015164 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 424182015165 Walker A/P-loop; other site 424182015166 ATP binding site [chemical binding]; other site 424182015167 Q-loop/lid; other site 424182015168 ABC transporter signature motif; other site 424182015169 Walker B; other site 424182015170 D-loop; other site 424182015171 H-loop/switch region; other site 424182015172 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 424182015173 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182015174 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 424182015175 Walker A/P-loop; other site 424182015176 ATP binding site [chemical binding]; other site 424182015177 Q-loop/lid; other site 424182015178 ABC transporter signature motif; other site 424182015179 Walker B; other site 424182015180 D-loop; other site 424182015181 H-loop/switch region; other site 424182015182 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 424182015183 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 424182015184 E3 interaction surface; other site 424182015185 lipoyl attachment site [posttranslational modification]; other site 424182015186 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182015187 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 424182015188 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182015189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182015190 DNA-binding site [nucleotide binding]; DNA binding site 424182015191 FCD domain; Region: FCD; pfam07729 424182015192 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182015193 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182015194 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182015195 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182015196 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182015197 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182015198 Putative FMN-binding domain; Region: FMN_bind_2; cl17803 424182015199 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182015200 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182015201 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182015202 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182015203 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182015204 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182015205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015206 putative PBP binding loops; other site 424182015207 ABC-ATPase subunit interface; other site 424182015208 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182015209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015210 dimer interface [polypeptide binding]; other site 424182015211 conserved gate region; other site 424182015212 putative PBP binding loops; other site 424182015213 ABC-ATPase subunit interface; other site 424182015214 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182015215 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182015216 Walker A/P-loop; other site 424182015217 ATP binding site [chemical binding]; other site 424182015218 Q-loop/lid; other site 424182015219 ABC transporter signature motif; other site 424182015220 Walker B; other site 424182015221 D-loop; other site 424182015222 H-loop/switch region; other site 424182015223 TOBE domain; Region: TOBE_2; pfam08402 424182015224 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 424182015225 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182015226 extended (e) SDRs; Region: SDR_e; cd08946 424182015227 NAD(P) binding site [chemical binding]; other site 424182015228 active site 424182015229 substrate binding site [chemical binding]; other site 424182015230 hypothetical protein; Validated; Region: PRK08245 424182015231 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182015232 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 424182015233 DNA binding residues [nucleotide binding] 424182015234 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182015235 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015236 dimer interface [polypeptide binding]; other site 424182015237 conserved gate region; other site 424182015238 putative PBP binding loops; other site 424182015239 ABC-ATPase subunit interface; other site 424182015240 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182015241 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015242 dimer interface [polypeptide binding]; other site 424182015243 conserved gate region; other site 424182015244 putative PBP binding loops; other site 424182015245 ABC-ATPase subunit interface; other site 424182015246 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182015247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182015248 Walker A/P-loop; other site 424182015249 ATP binding site [chemical binding]; other site 424182015250 Q-loop/lid; other site 424182015251 ABC transporter signature motif; other site 424182015252 Walker B; other site 424182015253 D-loop; other site 424182015254 H-loop/switch region; other site 424182015255 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182015256 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182015257 Walker A/P-loop; other site 424182015258 ATP binding site [chemical binding]; other site 424182015259 Q-loop/lid; other site 424182015260 ABC transporter signature motif; other site 424182015261 Walker B; other site 424182015262 D-loop; other site 424182015263 H-loop/switch region; other site 424182015264 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182015265 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 424182015266 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 424182015267 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 424182015268 Uncharacterized conserved protein [Function unknown]; Region: COG3535 424182015269 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182015270 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 424182015271 Uncharacterized conserved protein [Function unknown]; Region: COG3535 424182015272 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 424182015273 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 424182015274 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 424182015275 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 424182015276 catalytic nucleophile [active] 424182015277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182015278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182015279 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 424182015280 putative dimerization interface [polypeptide binding]; other site 424182015281 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182015282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015283 dimer interface [polypeptide binding]; other site 424182015284 conserved gate region; other site 424182015285 putative PBP binding loops; other site 424182015286 ABC-ATPase subunit interface; other site 424182015287 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 424182015288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015289 dimer interface [polypeptide binding]; other site 424182015290 conserved gate region; other site 424182015291 putative PBP binding loops; other site 424182015292 ABC-ATPase subunit interface; other site 424182015293 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182015294 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182015295 Walker A/P-loop; other site 424182015296 ATP binding site [chemical binding]; other site 424182015297 Q-loop/lid; other site 424182015298 ABC transporter signature motif; other site 424182015299 Walker B; other site 424182015300 D-loop; other site 424182015301 H-loop/switch region; other site 424182015302 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182015303 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182015304 Walker A/P-loop; other site 424182015305 ATP binding site [chemical binding]; other site 424182015306 Q-loop/lid; other site 424182015307 ABC transporter signature motif; other site 424182015308 Walker B; other site 424182015309 D-loop; other site 424182015310 H-loop/switch region; other site 424182015311 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182015312 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 424182015313 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 424182015314 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182015315 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 424182015316 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182015317 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 424182015318 putative metal binding site [ion binding]; other site 424182015319 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 424182015320 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 424182015321 putative ligand binding site [chemical binding]; other site 424182015322 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182015323 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182015324 Walker A/P-loop; other site 424182015325 ATP binding site [chemical binding]; other site 424182015326 Q-loop/lid; other site 424182015327 ABC transporter signature motif; other site 424182015328 Walker B; other site 424182015329 D-loop; other site 424182015330 H-loop/switch region; other site 424182015331 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182015332 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182015333 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 424182015334 TM-ABC transporter signature motif; other site 424182015335 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 424182015336 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 424182015337 catalytic triad [active] 424182015338 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 424182015339 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 424182015340 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 424182015341 DctM-like transporters; Region: DctM; pfam06808 424182015342 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 424182015343 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 424182015344 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 424182015345 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 424182015346 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 424182015347 PAS domain; Region: PAS_9; pfam13426 424182015348 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 424182015349 putative active site [active] 424182015350 heme pocket [chemical binding]; other site 424182015351 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 424182015352 PAS domain; Region: PAS_9; pfam13426 424182015353 putative active site [active] 424182015354 heme pocket [chemical binding]; other site 424182015355 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 424182015356 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 424182015357 dimer interface [polypeptide binding]; other site 424182015358 putative CheW interface [polypeptide binding]; other site 424182015359 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 424182015360 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 424182015361 active site 424182015362 non-prolyl cis peptide bond; other site 424182015363 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 424182015364 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182015365 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182015366 Walker A/P-loop; other site 424182015367 ATP binding site [chemical binding]; other site 424182015368 Q-loop/lid; other site 424182015369 ABC transporter signature motif; other site 424182015370 Walker B; other site 424182015371 D-loop; other site 424182015372 H-loop/switch region; other site 424182015373 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182015374 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015375 dimer interface [polypeptide binding]; other site 424182015376 conserved gate region; other site 424182015377 putative PBP binding loops; other site 424182015378 ABC-ATPase subunit interface; other site 424182015379 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182015380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015381 dimer interface [polypeptide binding]; other site 424182015382 conserved gate region; other site 424182015383 putative PBP binding loops; other site 424182015384 ABC-ATPase subunit interface; other site 424182015385 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182015386 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 424182015387 substrate binding pocket [chemical binding]; other site 424182015388 membrane-bound complex binding site; other site 424182015389 hinge residues; other site 424182015390 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 424182015391 Malic enzyme, N-terminal domain; Region: malic; pfam00390 424182015392 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 424182015393 putative NAD(P) binding site [chemical binding]; other site 424182015394 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 424182015395 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182015396 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182015397 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 424182015398 dimerization interface [polypeptide binding]; other site 424182015399 substrate binding pocket [chemical binding]; other site 424182015400 Cobalt transport protein; Region: CbiQ; cl00463 424182015401 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 424182015402 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 424182015403 Trp docking motif [polypeptide binding]; other site 424182015404 putative active site [active] 424182015405 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 424182015406 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 424182015407 Substrate binding site; other site 424182015408 Cupin domain; Region: Cupin_2; cl17218 424182015409 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182015410 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182015411 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182015412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015413 dimer interface [polypeptide binding]; other site 424182015414 conserved gate region; other site 424182015415 putative PBP binding loops; other site 424182015416 ABC-ATPase subunit interface; other site 424182015417 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182015418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015419 dimer interface [polypeptide binding]; other site 424182015420 conserved gate region; other site 424182015421 putative PBP binding loops; other site 424182015422 ABC-ATPase subunit interface; other site 424182015423 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182015424 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182015425 Walker A/P-loop; other site 424182015426 ATP binding site [chemical binding]; other site 424182015427 Q-loop/lid; other site 424182015428 ABC transporter signature motif; other site 424182015429 Walker B; other site 424182015430 D-loop; other site 424182015431 H-loop/switch region; other site 424182015432 TOBE domain; Region: TOBE_2; pfam08402 424182015433 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182015434 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182015435 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182015436 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 424182015437 Ligand Binding Site [chemical binding]; other site 424182015438 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 424182015439 active site 424182015440 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 424182015441 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 424182015442 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182015443 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182015444 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182015445 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 424182015446 conserved cys residue [active] 424182015447 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 424182015448 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182015449 Walker A/P-loop; other site 424182015450 ATP binding site [chemical binding]; other site 424182015451 Q-loop/lid; other site 424182015452 ABC transporter signature motif; other site 424182015453 Walker B; other site 424182015454 D-loop; other site 424182015455 H-loop/switch region; other site 424182015456 TOBE domain; Region: TOBE_2; pfam08402 424182015457 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182015458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015459 dimer interface [polypeptide binding]; other site 424182015460 conserved gate region; other site 424182015461 putative PBP binding loops; other site 424182015462 ABC-ATPase subunit interface; other site 424182015463 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182015464 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015465 dimer interface [polypeptide binding]; other site 424182015466 conserved gate region; other site 424182015467 putative PBP binding loops; other site 424182015468 ABC-ATPase subunit interface; other site 424182015469 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182015470 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 424182015471 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182015472 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182015473 DNA binding site [nucleotide binding] 424182015474 domain linker motif; other site 424182015475 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 424182015476 ligand binding site [chemical binding]; other site 424182015477 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 424182015478 active site 424182015479 DNA binding site [nucleotide binding] 424182015480 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182015481 classical (c) SDRs; Region: SDR_c; cd05233 424182015482 NAD(P) binding site [chemical binding]; other site 424182015483 active site 424182015484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 424182015485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 424182015486 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 424182015487 Protein of unknown function (DUF982); Region: DUF982; pfam06169 424182015488 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 424182015489 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 424182015490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182015491 Walker A/P-loop; other site 424182015492 ATP binding site [chemical binding]; other site 424182015493 Q-loop/lid; other site 424182015494 ABC transporter signature motif; other site 424182015495 Walker B; other site 424182015496 D-loop; other site 424182015497 H-loop/switch region; other site 424182015498 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 424182015499 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182015500 substrate binding pocket [chemical binding]; other site 424182015501 membrane-bound complex binding site; other site 424182015502 hinge residues; other site 424182015503 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182015504 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015505 dimer interface [polypeptide binding]; other site 424182015506 conserved gate region; other site 424182015507 putative PBP binding loops; other site 424182015508 ABC-ATPase subunit interface; other site 424182015509 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 424182015510 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015511 dimer interface [polypeptide binding]; other site 424182015512 conserved gate region; other site 424182015513 putative PBP binding loops; other site 424182015514 ABC-ATPase subunit interface; other site 424182015515 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 424182015516 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 424182015517 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 424182015518 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 424182015519 inhibitor-cofactor binding pocket; inhibition site 424182015520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182015521 catalytic residue [active] 424182015522 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 424182015523 sequence-specific DNA binding site [nucleotide binding]; other site 424182015524 salt bridge; other site 424182015525 Cupin domain; Region: Cupin_2; pfam07883 424182015526 Bacterial sugar transferase; Region: Bac_transf; pfam02397 424182015527 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 424182015528 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 424182015529 SLBB domain; Region: SLBB; pfam10531 424182015530 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 424182015531 O-Antigen ligase; Region: Wzy_C; pfam04932 424182015532 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 424182015533 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182015534 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182015535 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 424182015536 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182015537 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 424182015538 Walker A/P-loop; other site 424182015539 ATP binding site [chemical binding]; other site 424182015540 Q-loop/lid; other site 424182015541 ABC transporter signature motif; other site 424182015542 Walker B; other site 424182015543 D-loop; other site 424182015544 H-loop/switch region; other site 424182015545 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 424182015546 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 424182015547 DNA binding residues [nucleotide binding] 424182015548 dimerization interface [polypeptide binding]; other site 424182015549 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 424182015550 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182015551 NAD binding site [chemical binding]; other site 424182015552 putative substrate binding site 2 [chemical binding]; other site 424182015553 putative substrate binding site 1 [chemical binding]; other site 424182015554 active site 424182015555 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 424182015556 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 424182015557 NAD binding site [chemical binding]; other site 424182015558 homodimer interface [polypeptide binding]; other site 424182015559 active site 424182015560 substrate binding site [chemical binding]; other site 424182015561 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 424182015562 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 424182015563 active site 424182015564 Protein of unknown function (DUF995); Region: DUF995; pfam06191 424182015565 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 424182015566 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 424182015567 dimerization interface [polypeptide binding]; other site 424182015568 putative active cleft [active] 424182015569 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 424182015570 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 424182015571 DXD motif; other site 424182015572 PilZ domain; Region: PilZ; pfam07238 424182015573 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 424182015574 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 424182015575 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 424182015576 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 424182015577 metal binding site [ion binding]; metal-binding site 424182015578 putative dimer interface [polypeptide binding]; other site 424182015579 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 424182015580 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 424182015581 binding surface 424182015582 Tetratricopeptide repeat; Region: TPR_16; pfam13432 424182015583 TPR motif; other site 424182015584 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 424182015585 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 424182015586 classical (c) SDRs; Region: SDR_c; cd05233 424182015587 NAD(P) binding site [chemical binding]; other site 424182015588 active site 424182015589 aminotransferase; Provisional; Region: PRK06105 424182015590 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 424182015591 inhibitor-cofactor binding pocket; inhibition site 424182015592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 424182015593 catalytic residue [active] 424182015594 Predicted membrane protein [Function unknown]; Region: COG2510 424182015595 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182015596 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 424182015597 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 424182015598 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 424182015599 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 424182015600 dimer interface [polypeptide binding]; other site 424182015601 phosphorylation site [posttranslational modification] 424182015602 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 424182015603 ATP binding site [chemical binding]; other site 424182015604 Mg2+ binding site [ion binding]; other site 424182015605 G-X-G motif; other site 424182015606 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 424182015607 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 424182015608 active site 424182015609 phosphorylation site [posttranslational modification] 424182015610 intermolecular recognition site; other site 424182015611 dimerization interface [polypeptide binding]; other site 424182015612 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 424182015613 Walker A motif; other site 424182015614 ATP binding site [chemical binding]; other site 424182015615 Walker B motif; other site 424182015616 arginine finger; other site 424182015617 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 424182015618 BA14K-like protein; Region: BA14K; pfam07886 424182015619 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182015620 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182015621 DNA-binding site [nucleotide binding]; DNA binding site 424182015622 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182015623 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 424182015624 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 424182015625 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 424182015626 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 424182015627 active site 424182015628 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 424182015629 dimer interface [polypeptide binding]; other site 424182015630 substrate binding site [chemical binding]; other site 424182015631 catalytic residues [active] 424182015632 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 424182015633 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 424182015634 putative DNA binding site [nucleotide binding]; other site 424182015635 putative Zn2+ binding site [ion binding]; other site 424182015636 AsnC family; Region: AsnC_trans_reg; pfam01037 424182015637 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 424182015638 dimer interface [polypeptide binding]; other site 424182015639 substrate binding site [chemical binding]; other site 424182015640 ATP binding site [chemical binding]; other site 424182015641 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 424182015642 active site 424182015643 thiamine phosphate binding site [chemical binding]; other site 424182015644 pyrophosphate binding site [ion binding]; other site 424182015645 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 424182015646 substrate binding site [chemical binding]; other site 424182015647 multimerization interface [polypeptide binding]; other site 424182015648 ATP binding site [chemical binding]; other site 424182015649 NMT1/THI5 like; Region: NMT1; pfam09084 424182015650 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 424182015651 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 424182015652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015653 dimer interface [polypeptide binding]; other site 424182015654 conserved gate region; other site 424182015655 putative PBP binding loops; other site 424182015656 ABC-ATPase subunit interface; other site 424182015657 alpha-glucosidase; Provisional; Region: PRK10426 424182015658 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 424182015659 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 424182015660 putative active site [active] 424182015661 putative catalytic site [active] 424182015662 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182015663 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015664 dimer interface [polypeptide binding]; other site 424182015665 conserved gate region; other site 424182015666 putative PBP binding loops; other site 424182015667 ABC-ATPase subunit interface; other site 424182015668 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015669 dimer interface [polypeptide binding]; other site 424182015670 conserved gate region; other site 424182015671 putative PBP binding loops; other site 424182015672 ABC-ATPase subunit interface; other site 424182015673 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182015674 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182015675 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182015676 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182015677 Walker A/P-loop; other site 424182015678 ATP binding site [chemical binding]; other site 424182015679 Q-loop/lid; other site 424182015680 ABC transporter signature motif; other site 424182015681 Walker B; other site 424182015682 D-loop; other site 424182015683 H-loop/switch region; other site 424182015684 TOBE domain; Region: TOBE; pfam03459 424182015685 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 424182015686 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182015687 DNA-binding site [nucleotide binding]; DNA binding site 424182015688 UTRA domain; Region: UTRA; pfam07702 424182015689 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 424182015690 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 424182015691 active site 424182015692 dimer interface [polypeptide binding]; other site 424182015693 non-prolyl cis peptide bond; other site 424182015694 insertion regions; other site 424182015695 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 424182015696 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182015697 active site 424182015698 catalytic tetrad [active] 424182015699 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 424182015700 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 424182015701 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 424182015702 Autotransporter beta-domain; Region: Autotransporter; pfam03797 424182015703 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 424182015704 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 424182015705 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 424182015706 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182015707 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182015708 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 424182015709 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 424182015710 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182015711 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 424182015712 putative ADP-binding pocket [chemical binding]; other site 424182015713 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182015714 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 424182015715 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182015716 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015717 dimer interface [polypeptide binding]; other site 424182015718 conserved gate region; other site 424182015719 putative PBP binding loops; other site 424182015720 ABC-ATPase subunit interface; other site 424182015721 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 424182015722 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015723 putative PBP binding loops; other site 424182015724 dimer interface [polypeptide binding]; other site 424182015725 ABC-ATPase subunit interface; other site 424182015726 Predicted amidohydrolase [General function prediction only]; Region: COG3964 424182015727 Metallo-dependent hydrolases, subgroup B 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_B; cd01307 424182015728 active site 424182015729 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 424182015730 homotrimer interaction site [polypeptide binding]; other site 424182015731 putative active site [active] 424182015732 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 424182015733 Transcriptional regulator [Transcription]; Region: IclR; COG1414 424182015734 Bacterial transcriptional regulator; Region: IclR; pfam01614 424182015735 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 424182015736 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182015737 catalytic residue [active] 424182015738 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182015739 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182015740 Walker A/P-loop; other site 424182015741 ATP binding site [chemical binding]; other site 424182015742 Q-loop/lid; other site 424182015743 ABC transporter signature motif; other site 424182015744 Walker B; other site 424182015745 D-loop; other site 424182015746 H-loop/switch region; other site 424182015747 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182015748 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182015749 Walker A/P-loop; other site 424182015750 ATP binding site [chemical binding]; other site 424182015751 Q-loop/lid; other site 424182015752 ABC transporter signature motif; other site 424182015753 Walker B; other site 424182015754 D-loop; other site 424182015755 H-loop/switch region; other site 424182015756 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182015757 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 424182015758 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 424182015759 C-terminal domain interface [polypeptide binding]; other site 424182015760 GSH binding site (G-site) [chemical binding]; other site 424182015761 dimer interface [polypeptide binding]; other site 424182015762 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 424182015763 N-terminal domain interface [polypeptide binding]; other site 424182015764 dimer interface [polypeptide binding]; other site 424182015765 substrate binding pocket (H-site) [chemical binding]; other site 424182015766 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 424182015767 dimerization interface [polypeptide binding]; other site 424182015768 putative DNA binding site [nucleotide binding]; other site 424182015769 putative Zn2+ binding site [ion binding]; other site 424182015770 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 424182015771 membrane-bound complex binding site; other site 424182015772 hinge residues; other site 424182015773 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 424182015774 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 424182015775 dimer interface [polypeptide binding]; other site 424182015776 non-prolyl cis peptide bond; other site 424182015777 active site 424182015778 insertion regions; other site 424182015779 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 424182015780 DctM-like transporters; Region: DctM; pfam06808 424182015781 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 424182015782 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 424182015783 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 424182015784 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 424182015785 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 424182015786 dimer interface [polypeptide binding]; other site 424182015787 NADP binding site [chemical binding]; other site 424182015788 catalytic residues [active] 424182015789 mannonate dehydratase; Provisional; Region: PRK03906 424182015790 mannonate dehydratase; Region: uxuA; TIGR00695 424182015791 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 424182015792 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 424182015793 putative NAD(P) binding site [chemical binding]; other site 424182015794 catalytic Zn binding site [ion binding]; other site 424182015795 DctM-like transporters; Region: DctM; pfam06808 424182015796 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 424182015797 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 424182015798 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 424182015799 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 424182015800 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182015801 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182015802 DNA-binding site [nucleotide binding]; DNA binding site 424182015803 FCD domain; Region: FCD; pfam07729 424182015804 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 424182015805 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 424182015806 septum formation inhibitor; Reviewed; Region: minC; PRK05177 424182015807 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 424182015808 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 424182015809 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 424182015810 Switch I; other site 424182015811 Switch II; other site 424182015812 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 424182015813 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 424182015814 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 424182015815 substrate binding pocket [chemical binding]; other site 424182015816 membrane-bound complex binding site; other site 424182015817 hinge residues; other site 424182015818 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 424182015819 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 424182015820 substrate binding pocket [chemical binding]; other site 424182015821 membrane-bound complex binding site; other site 424182015822 hinge residues; other site 424182015823 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 424182015824 dimerization interface [polypeptide binding]; other site 424182015825 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182015826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182015827 metal binding site [ion binding]; metal-binding site 424182015828 active site 424182015829 I-site; other site 424182015830 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 424182015831 hypothetical protein; Provisional; Region: PRK06102 424182015832 Amidase; Region: Amidase; cl11426 424182015833 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 424182015834 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 424182015835 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 424182015836 sequence-specific DNA binding site [nucleotide binding]; other site 424182015837 salt bridge; other site 424182015838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3828 424182015839 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182015840 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182015841 MarR family; Region: MarR_2; cl17246 424182015842 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 424182015843 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 424182015844 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182015845 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182015846 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 424182015847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015848 putative PBP binding loops; other site 424182015849 dimer interface [polypeptide binding]; other site 424182015850 ABC-ATPase subunit interface; other site 424182015851 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182015852 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015853 dimer interface [polypeptide binding]; other site 424182015854 conserved gate region; other site 424182015855 putative PBP binding loops; other site 424182015856 ABC-ATPase subunit interface; other site 424182015857 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182015858 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182015859 Walker A/P-loop; other site 424182015860 ATP binding site [chemical binding]; other site 424182015861 Q-loop/lid; other site 424182015862 ABC transporter signature motif; other site 424182015863 Walker B; other site 424182015864 D-loop; other site 424182015865 H-loop/switch region; other site 424182015866 TOBE domain; Region: TOBE_2; pfam08402 424182015867 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 424182015868 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 424182015869 AP (apurinic/apyrimidinic) site pocket; other site 424182015870 DNA interaction; other site 424182015871 Metal-binding active site; metal-binding site 424182015872 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 424182015873 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 424182015874 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 424182015875 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 424182015876 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 424182015877 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 424182015878 MOFRL family; Region: MOFRL; pfam05161 424182015879 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 424182015880 Cupin; Region: Cupin_6; pfam12852 424182015881 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182015882 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182015883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182015884 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 424182015885 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 424182015886 putative substrate translocation pore; other site 424182015887 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182015888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182015889 DNA-binding site [nucleotide binding]; DNA binding site 424182015890 FCD domain; Region: FCD; cl11656 424182015891 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182015892 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 424182015893 TM-ABC transporter signature motif; other site 424182015894 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182015895 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 424182015896 TM-ABC transporter signature motif; other site 424182015897 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 424182015898 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 424182015899 Walker A/P-loop; other site 424182015900 ATP binding site [chemical binding]; other site 424182015901 Q-loop/lid; other site 424182015902 ABC transporter signature motif; other site 424182015903 Walker B; other site 424182015904 D-loop; other site 424182015905 H-loop/switch region; other site 424182015906 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 424182015907 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 424182015908 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 424182015909 putative ligand binding site [chemical binding]; other site 424182015910 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 424182015911 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 424182015912 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 424182015913 catalytic residue [active] 424182015914 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182015915 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182015916 Walker A/P-loop; other site 424182015917 ATP binding site [chemical binding]; other site 424182015918 Q-loop/lid; other site 424182015919 ABC transporter signature motif; other site 424182015920 Walker B; other site 424182015921 D-loop; other site 424182015922 H-loop/switch region; other site 424182015923 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182015924 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182015925 Walker A/P-loop; other site 424182015926 ATP binding site [chemical binding]; other site 424182015927 Q-loop/lid; other site 424182015928 ABC transporter signature motif; other site 424182015929 Walker B; other site 424182015930 D-loop; other site 424182015931 H-loop/switch region; other site 424182015932 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182015933 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 424182015934 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015935 dimer interface [polypeptide binding]; other site 424182015936 conserved gate region; other site 424182015937 putative PBP binding loops; other site 424182015938 ABC-ATPase subunit interface; other site 424182015939 nickel transporter permease NikB; Provisional; Region: PRK10352 424182015940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015941 dimer interface [polypeptide binding]; other site 424182015942 conserved gate region; other site 424182015943 putative PBP binding loops; other site 424182015944 ABC-ATPase subunit interface; other site 424182015945 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182015946 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 424182015947 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 424182015948 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 424182015949 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 424182015950 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182015951 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182015952 dimer interface [polypeptide binding]; other site 424182015953 conserved gate region; other site 424182015954 putative PBP binding loops; other site 424182015955 ABC-ATPase subunit interface; other site 424182015956 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 424182015957 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182015958 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182015959 Walker A/P-loop; other site 424182015960 ATP binding site [chemical binding]; other site 424182015961 Q-loop/lid; other site 424182015962 ABC transporter signature motif; other site 424182015963 Walker B; other site 424182015964 D-loop; other site 424182015965 H-loop/switch region; other site 424182015966 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 424182015967 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 424182015968 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 424182015969 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182015970 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182015971 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 424182015972 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 424182015973 active site 424182015974 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 424182015975 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 424182015976 muropeptide transporter; Validated; Region: ampG; cl17669 424182015977 Secretin and TonB N terminus short domain; Region: STN; smart00965 424182015978 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 424182015979 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 424182015980 N-terminal plug; other site 424182015981 ligand-binding site [chemical binding]; other site 424182015982 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 424182015983 FecR protein; Region: FecR; pfam04773 424182015984 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 424182015985 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182015986 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 424182015987 DNA binding residues [nucleotide binding] 424182015988 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 424182015989 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 424182015990 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 424182015991 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 424182015992 putative active site [active] 424182015993 catalytic site [active] 424182015994 putative metal binding site [ion binding]; other site 424182015995 oligomer interface [polypeptide binding]; other site 424182015996 short chain dehydrogenase; Validated; Region: PRK06182 424182015997 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 424182015998 NADP binding site [chemical binding]; other site 424182015999 active site 424182016000 steroid binding site; other site 424182016001 Cupin; Region: Cupin_6; pfam12852 424182016002 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182016003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182016004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182016005 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 424182016006 putative DNA binding site [nucleotide binding]; other site 424182016007 putative Zn2+ binding site [ion binding]; other site 424182016008 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 424182016009 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 424182016010 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 424182016011 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 424182016012 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182016013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182016014 Walker A/P-loop; other site 424182016015 ATP binding site [chemical binding]; other site 424182016016 Q-loop/lid; other site 424182016017 ABC transporter signature motif; other site 424182016018 Walker B; other site 424182016019 D-loop; other site 424182016020 H-loop/switch region; other site 424182016021 TOBE domain; Region: TOBE_2; pfam08402 424182016022 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 424182016023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016024 dimer interface [polypeptide binding]; other site 424182016025 conserved gate region; other site 424182016026 putative PBP binding loops; other site 424182016027 ABC-ATPase subunit interface; other site 424182016028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016029 dimer interface [polypeptide binding]; other site 424182016030 conserved gate region; other site 424182016031 putative PBP binding loops; other site 424182016032 ABC-ATPase subunit interface; other site 424182016033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 424182016034 Transposase; Region: DEDD_Tnp_IS110; pfam01548 424182016035 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 424182016036 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 424182016037 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 424182016038 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 424182016039 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 424182016040 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 424182016041 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 424182016042 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 424182016043 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 424182016044 Interdomain contacts; other site 424182016045 Cytokine receptor motif; other site 424182016046 Autotransporter beta-domain; Region: Autotransporter; smart00869 424182016047 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 424182016048 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; cl17426 424182016049 folate binding site [chemical binding]; other site 424182016050 NADP+ binding site [chemical binding]; other site 424182016051 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 424182016052 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 424182016053 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 424182016054 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 424182016055 MobA/MobL family; Region: MobA_MobL; pfam03389 424182016056 AAA domain; Region: AAA_30; pfam13604 424182016057 Family description; Region: UvrD_C_2; pfam13538 424182016058 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 424182016059 active site 424182016060 NTP binding site [chemical binding]; other site 424182016061 metal binding triad [ion binding]; metal-binding site 424182016062 antibiotic binding site [chemical binding]; other site 424182016063 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 424182016064 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 424182016065 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 424182016066 Walker A motif; other site 424182016067 ATP binding site [chemical binding]; other site 424182016068 Walker B motif; other site 424182016069 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 424182016070 Sodium Bile acid symporter family; Region: SBF; pfam01758 424182016071 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 424182016072 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 424182016073 active site 424182016074 catalytic tetrad [active] 424182016075 transcriptional regulator; Provisional; Region: PRK10632 424182016076 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182016077 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 424182016078 dimerization interface [polypeptide binding]; other site 424182016079 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 424182016080 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 424182016081 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182016082 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 424182016083 Walker A/P-loop; other site 424182016084 ATP binding site [chemical binding]; other site 424182016085 Q-loop/lid; other site 424182016086 ABC transporter signature motif; other site 424182016087 Walker B; other site 424182016088 D-loop; other site 424182016089 H-loop/switch region; other site 424182016090 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182016091 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 424182016092 Methyltransferase domain; Region: Methyltransf_24; pfam13578 424182016093 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 424182016094 Rhamnan synthesis protein F; Region: RgpF; pfam05045 424182016095 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 424182016096 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 424182016097 Probable Catalytic site; other site 424182016098 metal-binding site 424182016099 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 424182016100 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 424182016101 substrate binding site; other site 424182016102 tetramer interface; other site 424182016103 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 424182016104 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 424182016105 NADP binding site [chemical binding]; other site 424182016106 active site 424182016107 putative substrate binding site [chemical binding]; other site 424182016108 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 424182016109 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 424182016110 NAD binding site [chemical binding]; other site 424182016111 substrate binding site [chemical binding]; other site 424182016112 homodimer interface [polypeptide binding]; other site 424182016113 active site 424182016114 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 424182016115 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 424182016116 Part of AAA domain; Region: AAA_19; pfam13245 424182016117 Family description; Region: UvrD_C_2; pfam13538 424182016118 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182016119 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 424182016120 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182016121 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182016122 DNA binding site [nucleotide binding] 424182016123 domain linker motif; other site 424182016124 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 424182016125 ligand binding site [chemical binding]; other site 424182016126 dimerization interface [polypeptide binding]; other site 424182016127 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 424182016128 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182016129 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 424182016130 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016131 dimer interface [polypeptide binding]; other site 424182016132 conserved gate region; other site 424182016133 putative PBP binding loops; other site 424182016134 ABC-ATPase subunit interface; other site 424182016135 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182016136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016137 dimer interface [polypeptide binding]; other site 424182016138 conserved gate region; other site 424182016139 putative PBP binding loops; other site 424182016140 ABC-ATPase subunit interface; other site 424182016141 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182016142 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182016143 Walker A/P-loop; other site 424182016144 ATP binding site [chemical binding]; other site 424182016145 Q-loop/lid; other site 424182016146 ABC transporter signature motif; other site 424182016147 Walker B; other site 424182016148 D-loop; other site 424182016149 H-loop/switch region; other site 424182016150 TOBE domain; Region: TOBE_2; pfam08402 424182016151 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182016152 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016153 Walker A/P-loop; other site 424182016154 ATP binding site [chemical binding]; other site 424182016155 Q-loop/lid; other site 424182016156 ABC transporter signature motif; other site 424182016157 Walker B; other site 424182016158 D-loop; other site 424182016159 H-loop/switch region; other site 424182016160 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 424182016161 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016162 Walker A/P-loop; other site 424182016163 ATP binding site [chemical binding]; other site 424182016164 Q-loop/lid; other site 424182016165 ABC transporter signature motif; other site 424182016166 Walker B; other site 424182016167 D-loop; other site 424182016168 H-loop/switch region; other site 424182016169 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182016170 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182016171 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 424182016172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016173 dimer interface [polypeptide binding]; other site 424182016174 conserved gate region; other site 424182016175 putative PBP binding loops; other site 424182016176 ABC-ATPase subunit interface; other site 424182016177 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182016178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016179 dimer interface [polypeptide binding]; other site 424182016180 conserved gate region; other site 424182016181 putative PBP binding loops; other site 424182016182 ABC-ATPase subunit interface; other site 424182016183 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182016184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182016185 DNA-binding site [nucleotide binding]; DNA binding site 424182016186 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182016187 D-mannonate dehydratase [Carbohydrate transport and metabolism]; Region: UxuA; COG1312 424182016188 mannonate dehydratase; Region: uxuA; TIGR00695 424182016189 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182016190 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 424182016191 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 424182016192 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 424182016193 PAS domain S-box; Region: sensory_box; TIGR00229 424182016194 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 424182016195 putative active site [active] 424182016196 heme pocket [chemical binding]; other site 424182016197 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182016198 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182016199 metal binding site [ion binding]; metal-binding site 424182016200 active site 424182016201 I-site; other site 424182016202 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 424182016203 oxidoreductase; Provisional; Region: PRK06128 424182016204 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 424182016205 NAD binding site [chemical binding]; other site 424182016206 metal binding site [ion binding]; metal-binding site 424182016207 active site 424182016208 C-terminal putative kinase domain of FAM20 (family with sequence similarity 20), Drosophila Four-jointed (Fj), and related proteins; Region: FAM20_C_like; cl05973 424182016209 putative activation loop; other site 424182016210 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 424182016211 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 424182016212 putative DNA binding site [nucleotide binding]; other site 424182016213 putative homodimer interface [polypeptide binding]; other site 424182016214 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 424182016215 nucleotide binding site [chemical binding]; other site 424182016216 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 424182016217 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 424182016218 heterodimer interface [polypeptide binding]; other site 424182016219 DNA binding site [nucleotide binding] 424182016220 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 424182016221 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 424182016222 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 424182016223 nudix motif; other site 424182016224 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182016225 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 424182016226 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 424182016227 dimerization interface [polypeptide binding]; other site 424182016228 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 424182016229 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 424182016230 heme binding site [chemical binding]; other site 424182016231 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 424182016232 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 424182016233 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182016234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182016235 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 424182016236 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 424182016237 N-terminal plug; other site 424182016238 ligand-binding site [chemical binding]; other site 424182016239 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 424182016240 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 424182016241 siderophore binding site; other site 424182016242 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 424182016243 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 424182016244 ABC-ATPase subunit interface; other site 424182016245 dimer interface [polypeptide binding]; other site 424182016246 putative PBP binding regions; other site 424182016247 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 424182016248 ABC-ATPase subunit interface; other site 424182016249 dimer interface [polypeptide binding]; other site 424182016250 putative PBP binding regions; other site 424182016251 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 424182016252 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 424182016253 Walker A/P-loop; other site 424182016254 ATP binding site [chemical binding]; other site 424182016255 Q-loop/lid; other site 424182016256 ABC transporter signature motif; other site 424182016257 Walker B; other site 424182016258 D-loop; other site 424182016259 H-loop/switch region; other site 424182016260 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 424182016261 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 424182016262 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 424182016263 non-specific DNA binding site [nucleotide binding]; other site 424182016264 salt bridge; other site 424182016265 sequence-specific DNA binding site [nucleotide binding]; other site 424182016266 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182016267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182016268 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 424182016269 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_5; cd06338 424182016270 putative ligand binding site [chemical binding]; other site 424182016271 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 424182016272 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 424182016273 TM-ABC transporter signature motif; other site 424182016274 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 424182016275 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 424182016276 TM-ABC transporter signature motif; other site 424182016277 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 424182016278 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 424182016279 Walker A/P-loop; other site 424182016280 ATP binding site [chemical binding]; other site 424182016281 Q-loop/lid; other site 424182016282 ABC transporter signature motif; other site 424182016283 Walker B; other site 424182016284 D-loop; other site 424182016285 H-loop/switch region; other site 424182016286 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 424182016287 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 424182016288 Walker A/P-loop; other site 424182016289 ATP binding site [chemical binding]; other site 424182016290 Q-loop/lid; other site 424182016291 ABC transporter signature motif; other site 424182016292 Walker B; other site 424182016293 D-loop; other site 424182016294 H-loop/switch region; other site 424182016295 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 424182016296 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182016297 NAD(P) binding site [chemical binding]; other site 424182016298 catalytic residues [active] 424182016299 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 424182016300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182016301 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 424182016302 dimerization interface [polypeptide binding]; other site 424182016303 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 424182016304 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 424182016305 Sulfatase; Region: Sulfatase; cl17466 424182016306 choline-sulfatase; Region: chol_sulfatase; TIGR03417 424182016307 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 424182016308 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 424182016309 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 424182016310 substrate binding site [chemical binding]; other site 424182016311 ATP binding site [chemical binding]; other site 424182016312 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 424182016313 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 424182016314 Walker A/P-loop; other site 424182016315 ATP binding site [chemical binding]; other site 424182016316 Q-loop/lid; other site 424182016317 ABC transporter signature motif; other site 424182016318 Walker B; other site 424182016319 D-loop; other site 424182016320 H-loop/switch region; other site 424182016321 TOBE domain; Region: TOBE_2; pfam08402 424182016322 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 424182016323 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 424182016324 active sites [active] 424182016325 tetramer interface [polypeptide binding]; other site 424182016326 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 424182016327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016328 dimer interface [polypeptide binding]; other site 424182016329 conserved gate region; other site 424182016330 putative PBP binding loops; other site 424182016331 ABC-ATPase subunit interface; other site 424182016332 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 424182016333 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016334 dimer interface [polypeptide binding]; other site 424182016335 conserved gate region; other site 424182016336 putative PBP binding loops; other site 424182016337 ABC-ATPase subunit interface; other site 424182016338 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 424182016339 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 424182016340 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 424182016341 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 424182016342 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 424182016343 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 424182016344 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 424182016345 EamA-like transporter family; Region: EamA; pfam00892 424182016346 EamA-like transporter family; Region: EamA; pfam00892 424182016347 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 424182016348 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 424182016349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 424182016350 alpha-galactosidase; Provisional; Region: PRK15076 424182016351 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 424182016352 NAD binding site [chemical binding]; other site 424182016353 sugar binding site [chemical binding]; other site 424182016354 divalent metal binding site [ion binding]; other site 424182016355 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 424182016356 dimer interface [polypeptide binding]; other site 424182016357 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 424182016358 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 424182016359 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182016360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016361 dimer interface [polypeptide binding]; other site 424182016362 conserved gate region; other site 424182016363 putative PBP binding loops; other site 424182016364 ABC-ATPase subunit interface; other site 424182016365 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182016366 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016367 dimer interface [polypeptide binding]; other site 424182016368 conserved gate region; other site 424182016369 putative PBP binding loops; other site 424182016370 ABC-ATPase subunit interface; other site 424182016371 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 424182016372 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016373 Walker A/P-loop; other site 424182016374 ATP binding site [chemical binding]; other site 424182016375 Q-loop/lid; other site 424182016376 ABC transporter signature motif; other site 424182016377 Walker B; other site 424182016378 D-loop; other site 424182016379 H-loop/switch region; other site 424182016380 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182016381 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016382 Walker A/P-loop; other site 424182016383 ATP binding site [chemical binding]; other site 424182016384 Q-loop/lid; other site 424182016385 ABC transporter signature motif; other site 424182016386 Walker B; other site 424182016387 D-loop; other site 424182016388 H-loop/switch region; other site 424182016389 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182016390 alpha-galactosidase; Provisional; Region: PRK15076 424182016391 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 424182016392 NAD binding site [chemical binding]; other site 424182016393 sugar binding site [chemical binding]; other site 424182016394 divalent metal binding site [ion binding]; other site 424182016395 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 424182016396 dimer interface [polypeptide binding]; other site 424182016397 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 424182016398 HlyD family secretion protein; Region: HlyD_3; pfam13437 424182016399 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182016400 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 424182016401 Walker A/P-loop; other site 424182016402 ATP binding site [chemical binding]; other site 424182016403 Q-loop/lid; other site 424182016404 ABC transporter signature motif; other site 424182016405 Walker B; other site 424182016406 D-loop; other site 424182016407 H-loop/switch region; other site 424182016408 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 424182016409 Walker A/P-loop; other site 424182016410 ATP binding site [chemical binding]; other site 424182016411 Q-loop/lid; other site 424182016412 ABC transporter signature motif; other site 424182016413 Walker B; other site 424182016414 D-loop; other site 424182016415 H-loop/switch region; other site 424182016416 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 424182016417 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 424182016418 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 424182016419 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 424182016420 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 424182016421 response regulator; Provisional; Region: PRK13435 424182016422 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 424182016423 active site 424182016424 phosphorylation site [posttranslational modification] 424182016425 intermolecular recognition site; other site 424182016426 dimerization interface [polypeptide binding]; other site 424182016427 cell division protein FtsZ; Validated; Region: PRK09330 424182016428 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 424182016429 nucleotide binding site [chemical binding]; other site 424182016430 SulA interaction site; other site 424182016431 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182016432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182016433 DNA-binding site [nucleotide binding]; DNA binding site 424182016434 FCD domain; Region: FCD; pfam07729 424182016435 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 424182016436 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 424182016437 inhibitor site; inhibition site 424182016438 active site 424182016439 dimer interface [polypeptide binding]; other site 424182016440 catalytic residue [active] 424182016441 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 424182016442 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182016443 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 424182016444 substrate binding pocket [chemical binding]; other site 424182016445 membrane-bound complex binding site; other site 424182016446 hinge residues; other site 424182016447 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016448 dimer interface [polypeptide binding]; other site 424182016449 conserved gate region; other site 424182016450 putative PBP binding loops; other site 424182016451 ABC-ATPase subunit interface; other site 424182016452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016453 dimer interface [polypeptide binding]; other site 424182016454 conserved gate region; other site 424182016455 putative PBP binding loops; other site 424182016456 ABC-ATPase subunit interface; other site 424182016457 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182016458 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182016459 Walker A/P-loop; other site 424182016460 ATP binding site [chemical binding]; other site 424182016461 Q-loop/lid; other site 424182016462 ABC transporter signature motif; other site 424182016463 Walker B; other site 424182016464 D-loop; other site 424182016465 H-loop/switch region; other site 424182016466 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182016467 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 424182016468 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 424182016469 NAD binding site [chemical binding]; other site 424182016470 hydroxyglutarate oxidase; Provisional; Region: PRK11728 424182016471 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 424182016472 substrate binding site [chemical binding]; other site 424182016473 Protein of unknown function (DUF521); Region: DUF521; pfam04412 424182016474 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 424182016475 substrate binding site [chemical binding]; other site 424182016476 ligand binding site [chemical binding]; other site 424182016477 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 424182016478 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 424182016479 Transcriptional regulators [Transcription]; Region: PurR; COG1609 424182016480 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 424182016481 DNA binding site [nucleotide binding] 424182016482 domain linker motif; other site 424182016483 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 424182016484 putative dimerization interface [polypeptide binding]; other site 424182016485 putative ligand binding site [chemical binding]; other site 424182016486 hypothetical protein; Provisional; Region: PRK07906 424182016487 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 424182016488 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 424182016489 substrate binding pocket [chemical binding]; other site 424182016490 membrane-bound complex binding site; other site 424182016491 hinge residues; other site 424182016492 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016493 dimer interface [polypeptide binding]; other site 424182016494 conserved gate region; other site 424182016495 ABC-ATPase subunit interface; other site 424182016496 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016497 dimer interface [polypeptide binding]; other site 424182016498 conserved gate region; other site 424182016499 putative PBP binding loops; other site 424182016500 ABC-ATPase subunit interface; other site 424182016501 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 424182016502 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 424182016503 Walker A/P-loop; other site 424182016504 ATP binding site [chemical binding]; other site 424182016505 Q-loop/lid; other site 424182016506 ABC transporter signature motif; other site 424182016507 Walker B; other site 424182016508 D-loop; other site 424182016509 H-loop/switch region; other site 424182016510 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 424182016511 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 424182016512 putative ligand binding site [chemical binding]; other site 424182016513 NAD binding site [chemical binding]; other site 424182016514 catalytic site [active] 424182016515 PAS fold; Region: PAS_4; pfam08448 424182016516 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 424182016517 putative active site [active] 424182016518 heme pocket [chemical binding]; other site 424182016519 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 424182016520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 424182016521 metal binding site [ion binding]; metal-binding site 424182016522 active site 424182016523 I-site; other site 424182016524 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 424182016525 Porin subfamily; Region: Porin_2; pfam02530 424182016526 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 424182016527 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 424182016528 active site 424182016529 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182016530 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 424182016531 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182016532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016533 dimer interface [polypeptide binding]; other site 424182016534 conserved gate region; other site 424182016535 putative PBP binding loops; other site 424182016536 ABC-ATPase subunit interface; other site 424182016537 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182016538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016539 dimer interface [polypeptide binding]; other site 424182016540 conserved gate region; other site 424182016541 putative PBP binding loops; other site 424182016542 ABC-ATPase subunit interface; other site 424182016543 cytosine deaminase; Provisional; Region: PRK05985 424182016544 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 424182016545 active site 424182016546 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 424182016547 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 424182016548 active site 424182016549 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 424182016550 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016551 Walker A/P-loop; other site 424182016552 ATP binding site [chemical binding]; other site 424182016553 Q-loop/lid; other site 424182016554 ABC transporter signature motif; other site 424182016555 Walker B; other site 424182016556 D-loop; other site 424182016557 H-loop/switch region; other site 424182016558 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 424182016559 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 424182016560 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016561 Walker A/P-loop; other site 424182016562 ATP binding site [chemical binding]; other site 424182016563 Q-loop/lid; other site 424182016564 ABC transporter signature motif; other site 424182016565 Walker B; other site 424182016566 D-loop; other site 424182016567 H-loop/switch region; other site 424182016568 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 424182016569 Transcriptional regulators [Transcription]; Region: GntR; COG1802 424182016570 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182016571 DNA-binding site [nucleotide binding]; DNA binding site 424182016572 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 424182016573 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 424182016574 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 424182016575 Transcriptional regulator [Transcription]; Region: LysR; COG0583 424182016576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 424182016577 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 424182016578 dimerization interface [polypeptide binding]; other site 424182016579 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 424182016580 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 424182016581 putative dimer interface [polypeptide binding]; other site 424182016582 [2Fe-2S] cluster binding site [ion binding]; other site 424182016583 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 424182016584 putative dimer interface [polypeptide binding]; other site 424182016585 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 424182016586 SLBB domain; Region: SLBB; pfam10531 424182016587 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 424182016588 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 424182016589 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 424182016590 catalytic loop [active] 424182016591 iron binding site [ion binding]; other site 424182016592 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 424182016593 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 424182016594 [4Fe-4S] binding site [ion binding]; other site 424182016595 molybdopterin cofactor binding site; other site 424182016596 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 424182016597 molybdopterin cofactor binding site; other site 424182016598 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 424182016599 Major Facilitator Superfamily; Region: MFS_1; pfam07690 424182016600 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 424182016601 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 424182016602 inhibitor site; inhibition site 424182016603 active site 424182016604 dimer interface [polypeptide binding]; other site 424182016605 catalytic residue [active] 424182016606 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 424182016607 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182016608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182016609 DNA-binding site [nucleotide binding]; DNA binding site 424182016610 FCD domain; Region: FCD; pfam07729 424182016611 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 424182016612 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 424182016613 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182016614 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016615 dimer interface [polypeptide binding]; other site 424182016616 conserved gate region; other site 424182016617 putative PBP binding loops; other site 424182016618 ABC-ATPase subunit interface; other site 424182016619 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 424182016620 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 424182016621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016622 dimer interface [polypeptide binding]; other site 424182016623 conserved gate region; other site 424182016624 putative PBP binding loops; other site 424182016625 ABC-ATPase subunit interface; other site 424182016626 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182016627 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016628 Walker A/P-loop; other site 424182016629 ATP binding site [chemical binding]; other site 424182016630 Q-loop/lid; other site 424182016631 ABC transporter signature motif; other site 424182016632 Walker B; other site 424182016633 D-loop; other site 424182016634 H-loop/switch region; other site 424182016635 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182016636 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016637 Walker A/P-loop; other site 424182016638 ATP binding site [chemical binding]; other site 424182016639 Q-loop/lid; other site 424182016640 ABC transporter signature motif; other site 424182016641 Walker B; other site 424182016642 D-loop; other site 424182016643 H-loop/switch region; other site 424182016644 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 424182016645 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 424182016646 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 424182016647 active site pocket [active] 424182016648 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 424182016649 active site 424182016650 catalytic residues [active] 424182016651 Transcriptional regulators [Transcription]; Region: FadR; COG2186 424182016652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 424182016653 DNA-binding site [nucleotide binding]; DNA binding site 424182016654 FCD domain; Region: FCD; pfam07729 424182016655 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 424182016656 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_5; cd08511 424182016657 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 424182016658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016659 dimer interface [polypeptide binding]; other site 424182016660 conserved gate region; other site 424182016661 ABC-ATPase subunit interface; other site 424182016662 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 424182016663 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016664 dimer interface [polypeptide binding]; other site 424182016665 conserved gate region; other site 424182016666 putative PBP binding loops; other site 424182016667 ABC-ATPase subunit interface; other site 424182016668 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 424182016669 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 424182016670 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 424182016671 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016672 Walker A/P-loop; other site 424182016673 ATP binding site [chemical binding]; other site 424182016674 Q-loop/lid; other site 424182016675 ABC transporter signature motif; other site 424182016676 Walker B; other site 424182016677 D-loop; other site 424182016678 H-loop/switch region; other site 424182016679 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182016680 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 424182016681 Walker A/P-loop; other site 424182016682 ATP binding site [chemical binding]; other site 424182016683 Q-loop/lid; other site 424182016684 ABC transporter signature motif; other site 424182016685 Walker B; other site 424182016686 D-loop; other site 424182016687 H-loop/switch region; other site 424182016688 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 424182016689 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 424182016690 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 424182016691 active site 424182016692 dimerization interface [polypeptide binding]; other site 424182016693 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 424182016694 active site 424182016695 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 424182016696 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 424182016697 Walker A/P-loop; other site 424182016698 ATP binding site [chemical binding]; other site 424182016699 Q-loop/lid; other site 424182016700 ABC transporter signature motif; other site 424182016701 Walker B; other site 424182016702 D-loop; other site 424182016703 H-loop/switch region; other site 424182016704 TOBE domain; Region: TOBE_2; pfam08402 424182016705 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 424182016706 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016707 dimer interface [polypeptide binding]; other site 424182016708 conserved gate region; other site 424182016709 putative PBP binding loops; other site 424182016710 ABC-ATPase subunit interface; other site 424182016711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 424182016712 dimer interface [polypeptide binding]; other site 424182016713 conserved gate region; other site 424182016714 putative PBP binding loops; other site 424182016715 ABC-ATPase subunit interface; other site 424182016716 hypothetical protein; Provisional; Region: PRK11622 424182016717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 424182016718 Predicted small integral membrane protein [Function unknown]; Region: COG5478 424182016719 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 424182016720 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 424182016721 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 424182016722 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 424182016723 heme binding pocket [chemical binding]; other site 424182016724 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 424182016725 domain interactions; other site 424182016726 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 424182016727 classical (c) SDRs; Region: SDR_c; cd05233 424182016728 NAD(P) binding site [chemical binding]; other site 424182016729 active site 424182016730 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 424182016731 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 424182016732 NAD binding site [chemical binding]; other site 424182016733 catalytic Zn binding site [ion binding]; other site 424182016734 structural Zn binding site [ion binding]; other site 424182016735 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 424182016736 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 424182016737 putative molybdopterin cofactor binding site [chemical binding]; other site 424182016738 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 424182016739 putative molybdopterin cofactor binding site; other site 424182016740 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 424182016741 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 424182016742 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 424182016743 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 424182016744 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 424182016745 Cytochrome c; Region: Cytochrom_C; cl11414 424182016746 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 424182016747 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 424182016748 D-pathway; other site 424182016749 Putative ubiquinol binding site [chemical binding]; other site 424182016750 Low-spin heme (heme b) binding site [chemical binding]; other site 424182016751 Putative water exit pathway; other site 424182016752 Binuclear center (heme o3/CuB) [ion binding]; other site 424182016753 K-pathway; other site 424182016754 Putative proton exit pathway; other site 424182016755 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 424182016756 Subunit I/III interface [polypeptide binding]; other site 424182016757 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 424182016758 Cytochrome c; Region: Cytochrom_C; cl11414 424182016759 Cytochrome c; Region: Cytochrom_C; cl11414 424182016760 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 424182016761 Cytochrome c; Region: Cytochrom_C; pfam00034 424182016762 Methyltransferase domain; Region: Methyltransf_23; pfam13489 424182016763 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 424182016764 S-adenosylmethionine binding site [chemical binding]; other site 424182016765 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 424182016766 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 424182016767 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 424182016768 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 424182016769 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 424182016770 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 424182016771 catalytic site [active] 424182016772 active site 424182016773 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 424182016774 glycogen synthase; Provisional; Region: glgA; PRK00654 424182016775 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 424182016776 ADP-binding pocket [chemical binding]; other site 424182016777 homodimer interface [polypeptide binding]; other site 424182016778 Isochorismatase family; Region: Isochorismatase; pfam00857 424182016779 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 424182016780 catalytic triad [active] 424182016781 conserved cis-peptide bond; other site 424182016782 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 424182016783 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 424182016784 ligand binding site [chemical binding]; other site 424182016785 flexible hinge region; other site 424182016786 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 424182016787 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 424182016788 dimerization interface [polypeptide binding]; other site 424182016789 metal binding site [ion binding]; metal-binding site 424182016790 Protein of unknown function (DUF982); Region: DUF982; pfam06169 424182016791 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 424182016792 Fe-S cluster binding site [ion binding]; other site 424182016793 active site 424182016794 Methyltransferase domain; Region: Methyltransf_23; pfam13489 424182016795 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 424182016796 S-adenosylmethionine binding site [chemical binding]; other site 424182016797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182016798 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182016799 NAD(P) binding site [chemical binding]; other site 424182016800 active site 424182016801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 424182016802 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 424182016803 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 424182016804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 424182016805 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 424182016806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 424182016807 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 424182016808 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 424182016809 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 424182016810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182016811 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182016812 NAD(P) binding site [chemical binding]; other site 424182016813 active site 424182016814 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 424182016815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 424182016816 NAD(P) binding site [chemical binding]; other site 424182016817 active site 424182016818 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 424182016819 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 424182016820 putative NAD(P) binding site [chemical binding]; other site 424182016821 catalytic Zn binding site [ion binding]; other site 424182016822 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 424182016823 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 424182016824 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 424182016825 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 424182016826 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 424182016827 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 424182016828 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 424182016829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 424182016830 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 424182016831 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 424182016832 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 424182016833 Walker A/P-loop; other site 424182016834 ATP binding site [chemical binding]; other site 424182016835 Q-loop/lid; other site 424182016836 ABC transporter signature motif; other site 424182016837 Walker B; other site 424182016838 D-loop; other site 424182016839 H-loop/switch region; other site 424182016840 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 424182016841 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 424182016842 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 424182016843 Sel1-like repeats; Region: SEL1; smart00671 424182016844 Sel1-like repeats; Region: SEL1; smart00671 424182016845 Sel1-like repeats; Region: SEL1; smart00671 424182016846 Sel1-like repeats; Region: SEL1; smart00671 424182016847 Sel1-like repeats; Region: SEL1; smart00671 424182016848 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 424182016849 hypothetical protein; Provisional; Region: PRK07236 424182016850 FAD binding domain; Region: FAD_binding_3; pfam01494 424182016851 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 424182016852 Cupin; Region: Cupin_1; smart00835 424182016853 Cupin; Region: Cupin_1; smart00835 424182016854 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 424182016855 Response regulator receiver domain; Region: Response_reg; pfam00072 424182016856 active site 424182016857 phosphorylation site [posttranslational modification] 424182016858 intermolecular recognition site; other site 424182016859 dimerization interface [polypeptide binding]; other site 424182016860 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 424182016861 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 424182016862 active site 424182016863 phosphorylation site [posttranslational modification] 424182016864 intermolecular recognition site; other site 424182016865 dimerization interface [polypeptide binding]; other site 424182016866 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 424182016867 DNA binding residues [nucleotide binding] 424182016868 dimerization interface [polypeptide binding]; other site 424182016869 PAS domain; Region: PAS_9; pfam13426 424182016870 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 424182016871 ATP binding site [chemical binding]; other site 424182016872 Mg2+ binding site [ion binding]; other site 424182016873 G-X-G motif; other site 424182016874 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 424182016875 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 424182016876 putative molybdopterin cofactor binding site [chemical binding]; other site 424182016877 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 424182016878 putative molybdopterin cofactor binding site; other site 424182016879 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 424182016880 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 424182016881 dimerization interface [polypeptide binding]; other site 424182016882 DPS ferroxidase diiron center [ion binding]; other site 424182016883 ion pore; other site 424182016884 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182016885 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 424182016886 Epoxide hydrolase N terminus; Region: EHN; pfam06441 424182016887 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182016888 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 424182016889 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 424182016890 NAD binding site [chemical binding]; other site 424182016891 catalytic residues [active] 424182016892 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 424182016893 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 424182016894 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 424182016895 dimer interface [polypeptide binding]; other site 424182016896 phosphorylation site [posttranslational modification] 424182016897 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 424182016898 ATP binding site [chemical binding]; other site 424182016899 Mg2+ binding site [ion binding]; other site 424182016900 G-X-G motif; other site 424182016901 osmolarity response regulator; Provisional; Region: ompR; PRK09468 424182016902 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 424182016903 active site 424182016904 phosphorylation site [posttranslational modification] 424182016905 intermolecular recognition site; other site 424182016906 dimerization interface [polypeptide binding]; other site 424182016907 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 424182016908 DNA binding site [nucleotide binding] 424182016909 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 424182016910 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 424182016911 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 424182016912 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 424182016913 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 424182016914 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 424182016915 catalytic residues [active] 424182016916 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 424182016917 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 424182016918 putative substrate translocation pore; other site 424182016919 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 424182016920 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 424182016921 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 424182016922 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 424182016923 cyclase homology domain; Region: CHD; cd07302 424182016924 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 424182016925 nucleotidyl binding site; other site 424182016926 metal binding site [ion binding]; metal-binding site 424182016927 dimer interface [polypeptide binding]; other site 424182016928 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 424182016929 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 424182016930 Prostaglandin dehydrogenases; Region: PGDH; cd05288 424182016931 NAD(P) binding site [chemical binding]; other site 424182016932 substrate binding site [chemical binding]; other site 424182016933 dimer interface [polypeptide binding]; other site 424182016934 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 424182016935 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 424182016936 dimerization interface [polypeptide binding]; other site 424182016937 NAD binding site [chemical binding]; other site 424182016938 ligand binding site [chemical binding]; other site 424182016939 catalytic site [active] 424182016940 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 424182016941 Predicted ester cyclase [General function prediction only]; Region: COG5485 424182016942 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 424182016943 catalytic core [active] 424182016944 AAA domain; Region: AAA_17; pfam13207 424182016945 AAA domain; Region: AAA_18; pfam13238 424182016946 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 424182016947 putative active site [active] 424182016948 Evidence 7 : Gene remnant; Product type r : regulator 424182016949 HipA N-terminal domain; Region: Couple_hipA; cl11853 424182016950 HipA-like N-terminal domain; Region: HipA_N; pfam07805 424182016951 HipA-like C-terminal domain; Region: HipA_C; pfam07804 424182016952 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 424182016953 Transposase; Region: HTH_Tnp_1; pfam01527 424182016954 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 424182016955 RES domain; Region: RES; cl02411 424182016956 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 424182016957 Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 424182016958 Transposase, Mutator family; Region: Transposase_mut; pfam00872 424182016959 MULE transposase domain; Region: MULE; pfam10551 424182016960 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 424182016961 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843