-- dump date 20140620_015945 -- class Genbank::misc_feature -- table misc_feature_note -- id note 644801000001 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 644801000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 644801000003 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 644801000004 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 644801000005 Walker A motif; other site 644801000006 ATP binding site [chemical binding]; other site 644801000007 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 644801000008 Walker B motif; other site 644801000009 arginine finger; other site 644801000010 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 644801000011 DnaA box-binding interface [nucleotide binding]; other site 644801000012 DNA polymerase III subunit beta; Validated; Region: PRK05643 644801000013 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 644801000014 putative DNA binding surface [nucleotide binding]; other site 644801000015 dimer interface [polypeptide binding]; other site 644801000016 beta-clamp/clamp loader binding surface; other site 644801000017 beta-clamp/translesion DNA polymerase binding surface; other site 644801000018 recombination protein F; Reviewed; Region: recF; PRK00064 644801000019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801000020 Walker A/P-loop; other site 644801000021 ATP binding site [chemical binding]; other site 644801000022 Q-loop/lid; other site 644801000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801000024 ABC transporter signature motif; other site 644801000025 Walker B; other site 644801000026 D-loop; other site 644801000027 H-loop/switch region; other site 644801000028 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 644801000029 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 644801000030 ATP binding site [chemical binding]; other site 644801000031 Mg2+ binding site [ion binding]; other site 644801000032 G-X-G motif; other site 644801000033 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 644801000034 anchoring element; other site 644801000035 dimer interface [polypeptide binding]; other site 644801000036 ATP binding site [chemical binding]; other site 644801000037 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 644801000038 active site 644801000039 putative metal-binding site [ion binding]; other site 644801000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 644801000041 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 644801000042 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 644801000043 catalytic residue [active] 644801000044 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 644801000045 catalytic residues [active] 644801000046 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644801000047 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801000048 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 644801000049 heme-binding site [chemical binding]; other site 644801000050 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801000051 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801000052 metal binding site [ion binding]; metal-binding site 644801000053 active site 644801000054 I-site; other site 644801000055 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644801000056 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 644801000057 putative acyl-acceptor binding pocket; other site 644801000058 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 644801000059 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 644801000060 active site 644801000061 motif I; other site 644801000062 motif II; other site 644801000063 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 644801000064 HD domain; Region: HD; pfam01966 644801000065 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 644801000066 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 644801000067 dimer interface [polypeptide binding]; other site 644801000068 motif 1; other site 644801000069 active site 644801000070 motif 2; other site 644801000071 motif 3; other site 644801000072 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 644801000073 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 644801000074 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 644801000075 putative acyl-acceptor binding pocket; other site 644801000076 PilZ domain; Region: PilZ; pfam07238 644801000077 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 644801000078 TPR motif; other site 644801000079 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644801000080 binding surface 644801000081 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 644801000082 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 644801000083 Walker A/P-loop; other site 644801000084 ATP binding site [chemical binding]; other site 644801000085 Q-loop/lid; other site 644801000086 ABC transporter signature motif; other site 644801000087 Walker B; other site 644801000088 D-loop; other site 644801000089 H-loop/switch region; other site 644801000090 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 644801000091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000092 dimer interface [polypeptide binding]; other site 644801000093 conserved gate region; other site 644801000094 putative PBP binding loops; other site 644801000095 ABC-ATPase subunit interface; other site 644801000096 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000097 dimer interface [polypeptide binding]; other site 644801000098 conserved gate region; other site 644801000099 putative PBP binding loops; other site 644801000100 ABC-ATPase subunit interface; other site 644801000101 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 644801000102 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 644801000103 substrate binding pocket [chemical binding]; other site 644801000104 membrane-bound complex binding site; other site 644801000105 hinge residues; other site 644801000106 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 644801000107 TrkA-N domain; Region: TrkA_N; pfam02254 644801000108 TrkA-C domain; Region: TrkA_C; pfam02080 644801000109 TrkA-N domain; Region: TrkA_N; pfam02254 644801000110 TrkA-C domain; Region: TrkA_C; pfam02080 644801000111 16S rRNA methyltransferase B; Provisional; Region: PRK10901 644801000112 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 644801000113 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 644801000114 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 644801000115 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 644801000116 putative active site [active] 644801000117 substrate binding site [chemical binding]; other site 644801000118 putative cosubstrate binding site; other site 644801000119 catalytic site [active] 644801000120 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 644801000121 substrate binding site [chemical binding]; other site 644801000122 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 644801000123 active site 644801000124 catalytic residues [active] 644801000125 metal binding site [ion binding]; metal-binding site 644801000126 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 644801000127 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644801000128 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 644801000129 DNA protecting protein DprA; Region: dprA; TIGR00732 644801000130 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 644801000131 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 644801000132 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 644801000133 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 644801000134 NADP binding site [chemical binding]; other site 644801000135 dimer interface [polypeptide binding]; other site 644801000136 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 644801000137 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 644801000138 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 644801000139 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 644801000140 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 644801000141 shikimate binding site; other site 644801000142 NAD(P) binding site [chemical binding]; other site 644801000143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801000144 NADH(P)-binding; Region: NAD_binding_10; pfam13460 644801000145 NAD(P) binding site [chemical binding]; other site 644801000146 active site 644801000147 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 644801000148 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 644801000149 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 644801000150 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644801000151 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 644801000152 N-terminal plug; other site 644801000153 ligand-binding site [chemical binding]; other site 644801000154 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 644801000155 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 644801000156 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 644801000157 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 644801000158 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 644801000159 phosphoglucomutase; Validated; Region: PRK07564 644801000160 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 644801000161 active site 644801000162 substrate binding site [chemical binding]; other site 644801000163 metal binding site [ion binding]; metal-binding site 644801000164 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 644801000165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 644801000166 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 644801000167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801000168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801000169 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 644801000170 dimerization interface [polypeptide binding]; other site 644801000171 Predicted membrane protein [Function unknown]; Region: COG2323 644801000172 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 644801000173 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 644801000174 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 644801000175 active site 644801000176 nucleophile elbow; other site 644801000177 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644801000178 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 644801000179 Walker A/P-loop; other site 644801000180 ATP binding site [chemical binding]; other site 644801000181 Q-loop/lid; other site 644801000182 ABC transporter signature motif; other site 644801000183 Walker B; other site 644801000184 D-loop; other site 644801000185 H-loop/switch region; other site 644801000186 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 644801000187 putative hydrophobic ligand binding site [chemical binding]; other site 644801000188 Predicted acetyltransferase [General function prediction only]; Region: COG2388 644801000189 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 644801000190 Predicted membrane protein [Function unknown]; Region: COG3918 644801000191 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801000192 putative S-transferase; Provisional; Region: PRK11752 644801000193 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 644801000194 C-terminal domain interface [polypeptide binding]; other site 644801000195 GSH binding site (G-site) [chemical binding]; other site 644801000196 dimer interface [polypeptide binding]; other site 644801000197 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 644801000198 dimer interface [polypeptide binding]; other site 644801000199 N-terminal domain interface [polypeptide binding]; other site 644801000200 active site 644801000201 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 644801000202 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644801000203 non-specific DNA binding site [nucleotide binding]; other site 644801000204 salt bridge; other site 644801000205 sequence-specific DNA binding site [nucleotide binding]; other site 644801000206 HipA-like N-terminal domain; Region: HipA_N; pfam07805 644801000207 HipA-like C-terminal domain; Region: HipA_C; pfam07804 644801000208 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 644801000209 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 644801000210 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 644801000211 substrate binding site [chemical binding]; other site 644801000212 active site 644801000213 catalytic residues [active] 644801000214 heterodimer interface [polypeptide binding]; other site 644801000215 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 644801000216 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 644801000217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801000218 catalytic residue [active] 644801000219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801000220 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 644801000221 dimerization interface [polypeptide binding]; other site 644801000222 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 644801000223 catalytic triad [active] 644801000224 putative active site [active] 644801000225 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 644801000226 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 644801000227 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 644801000228 conserved cys residue [active] 644801000229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801000230 Isochorismatase family; Region: Isochorismatase; pfam00857 644801000231 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 644801000232 catalytic triad [active] 644801000233 conserved cis-peptide bond; other site 644801000234 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 644801000235 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 644801000236 NAD binding site [chemical binding]; other site 644801000237 homodimer interface [polypeptide binding]; other site 644801000238 active site 644801000239 substrate binding site [chemical binding]; other site 644801000240 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 644801000241 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644801000242 putative homodimer interface [polypeptide binding]; other site 644801000243 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 644801000244 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644801000245 UDP-galactopyranose mutase; Region: GLF; pfam03275 644801000246 beta-galactosidase; Region: BGL; TIGR03356 644801000247 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644801000248 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644801000249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801000250 Walker A/P-loop; other site 644801000251 ATP binding site [chemical binding]; other site 644801000252 Q-loop/lid; other site 644801000253 ABC transporter signature motif; other site 644801000254 Walker B; other site 644801000255 D-loop; other site 644801000256 H-loop/switch region; other site 644801000257 KTSC domain; Region: KTSC; pfam13619 644801000258 Dodecin; Region: Dodecin; pfam07311 644801000259 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 644801000260 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 644801000261 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 644801000262 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 644801000263 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 644801000264 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 644801000265 Ferritin-like domain; Region: Ferritin; pfam00210 644801000266 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 644801000267 dinuclear metal binding motif [ion binding]; other site 644801000268 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 644801000269 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 644801000270 DctM-like transporters; Region: DctM; pfam06808 644801000271 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 644801000272 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 644801000273 putative hydrolase; Provisional; Region: PRK02113 644801000274 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 644801000275 Guanylate kinase; Region: Guanylate_kin; pfam00625 644801000276 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 644801000277 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 644801000278 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 644801000279 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 644801000280 active site 644801000281 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 644801000282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801000283 Walker A/P-loop; other site 644801000284 ATP binding site [chemical binding]; other site 644801000285 Q-loop/lid; other site 644801000286 ABC transporter signature motif; other site 644801000287 Walker B; other site 644801000288 D-loop; other site 644801000289 H-loop/switch region; other site 644801000290 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 644801000291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801000292 Walker A/P-loop; other site 644801000293 ATP binding site [chemical binding]; other site 644801000294 Q-loop/lid; other site 644801000295 ABC transporter signature motif; other site 644801000296 Walker B; other site 644801000297 D-loop; other site 644801000298 H-loop/switch region; other site 644801000299 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 644801000300 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 644801000301 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 644801000302 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 644801000303 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 644801000304 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 644801000305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801000306 DNA-binding site [nucleotide binding]; DNA binding site 644801000307 UTRA domain; Region: UTRA; pfam07702 644801000308 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 644801000309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000310 dimer interface [polypeptide binding]; other site 644801000311 conserved gate region; other site 644801000312 ABC-ATPase subunit interface; other site 644801000313 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 644801000314 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 644801000315 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 644801000316 Walker A/P-loop; other site 644801000317 ATP binding site [chemical binding]; other site 644801000318 Q-loop/lid; other site 644801000319 ABC transporter signature motif; other site 644801000320 Walker B; other site 644801000321 D-loop; other site 644801000322 H-loop/switch region; other site 644801000323 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 644801000324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801000325 NAD(P) binding site [chemical binding]; other site 644801000326 active site 644801000327 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 644801000328 Coenzyme A transferase; Region: CoA_trans; cl17247 644801000329 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 644801000330 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 644801000331 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 644801000332 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 644801000333 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 644801000334 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 644801000335 active site 644801000336 NTP binding site [chemical binding]; other site 644801000337 metal binding triad [ion binding]; metal-binding site 644801000338 antibiotic binding site [chemical binding]; other site 644801000339 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 644801000340 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 644801000341 Malonate transporter MadL subunit; Region: MadL; cl04273 644801000342 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 644801000343 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 644801000344 hydroxyglutarate oxidase; Provisional; Region: PRK11728 644801000345 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801000346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801000347 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 644801000348 putative dimerization interface [polypeptide binding]; other site 644801000349 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 644801000350 RNA polymerase sigma factor; Provisional; Region: PRK12536 644801000351 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 644801000352 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 644801000353 hypothetical protein; Provisional; Region: PRK05409 644801000354 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 644801000355 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 644801000356 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644801000357 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 644801000358 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 644801000359 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 644801000360 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 644801000361 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 644801000362 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 644801000363 Walker A motif; other site 644801000364 ATP binding site [chemical binding]; other site 644801000365 Walker B motif; other site 644801000366 arginine finger; other site 644801000367 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801000368 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 644801000369 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 644801000370 Walker A motif; other site 644801000371 ATP binding site [chemical binding]; other site 644801000372 Walker B motif; other site 644801000373 arginine finger; other site 644801000374 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 644801000375 Walker A motif; other site 644801000376 ATP binding site [chemical binding]; other site 644801000377 Walker B motif; other site 644801000378 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 644801000379 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 644801000380 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 644801000381 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 644801000382 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 644801000383 Uncharacterized conserved protein [Function unknown]; Region: COG4104 644801000384 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 644801000385 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 644801000386 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 644801000387 Protein of unknown function (DUF877); Region: DUF877; pfam05943 644801000388 Protein of unknown function (DUF770); Region: DUF770; pfam05591 644801000389 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 644801000390 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 644801000391 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 644801000392 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 644801000393 active site 644801000394 phosphate binding residues; other site 644801000395 catalytic residues [active] 644801000396 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 644801000397 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000398 dimer interface [polypeptide binding]; other site 644801000399 conserved gate region; other site 644801000400 putative PBP binding loops; other site 644801000401 ABC-ATPase subunit interface; other site 644801000402 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 644801000403 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000404 dimer interface [polypeptide binding]; other site 644801000405 conserved gate region; other site 644801000406 putative PBP binding loops; other site 644801000407 ABC-ATPase subunit interface; other site 644801000408 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644801000409 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 644801000410 substrate binding pocket [chemical binding]; other site 644801000411 membrane-bound complex binding site; other site 644801000412 hinge residues; other site 644801000413 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 644801000414 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 644801000415 Walker A/P-loop; other site 644801000416 ATP binding site [chemical binding]; other site 644801000417 Q-loop/lid; other site 644801000418 ABC transporter signature motif; other site 644801000419 Walker B; other site 644801000420 D-loop; other site 644801000421 H-loop/switch region; other site 644801000422 BCCT family transporter; Region: BCCT; pfam02028 644801000423 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 644801000424 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 644801000425 substrate binding pocket [chemical binding]; other site 644801000426 membrane-bound complex binding site; other site 644801000427 hinge residues; other site 644801000428 Staphylococcal nuclease homologues; Region: SNc; smart00318 644801000429 Catalytic site; other site 644801000430 Staphylococcal nuclease homologue; Region: SNase; pfam00565 644801000431 oxidative damage protection protein; Provisional; Region: PRK05408 644801000432 adenine DNA glycosylase; Provisional; Region: PRK10880 644801000433 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 644801000434 minor groove reading motif; other site 644801000435 helix-hairpin-helix signature motif; other site 644801000436 substrate binding pocket [chemical binding]; other site 644801000437 active site 644801000438 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 644801000439 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 644801000440 DNA binding and oxoG recognition site [nucleotide binding] 644801000441 AsmA family; Region: AsmA; pfam05170 644801000442 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 644801000443 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 644801000444 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 644801000445 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 644801000446 Walker A/P-loop; other site 644801000447 ATP binding site [chemical binding]; other site 644801000448 Q-loop/lid; other site 644801000449 ABC transporter signature motif; other site 644801000450 Walker B; other site 644801000451 D-loop; other site 644801000452 H-loop/switch region; other site 644801000453 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644801000454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000455 dimer interface [polypeptide binding]; other site 644801000456 conserved gate region; other site 644801000457 putative PBP binding loops; other site 644801000458 ABC-ATPase subunit interface; other site 644801000459 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644801000460 NMT1-like family; Region: NMT1_2; pfam13379 644801000461 Nitrate and nitrite sensing; Region: NIT; pfam08376 644801000462 ANTAR domain; Region: ANTAR; pfam03861 644801000463 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 644801000464 putative active site pocket [active] 644801000465 4-fold oligomerization interface [polypeptide binding]; other site 644801000466 metal binding residues [ion binding]; metal-binding site 644801000467 3-fold/trimer interface [polypeptide binding]; other site 644801000468 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 644801000469 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 644801000470 putative active site [active] 644801000471 oxyanion strand; other site 644801000472 catalytic triad [active] 644801000473 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 644801000474 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 644801000475 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 644801000476 catalytic residues [active] 644801000477 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 644801000478 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 644801000479 substrate binding site [chemical binding]; other site 644801000480 glutamase interaction surface [polypeptide binding]; other site 644801000481 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 644801000482 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644801000483 substrate binding pocket [chemical binding]; other site 644801000484 membrane-bound complex binding site; other site 644801000485 hinge residues; other site 644801000486 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 644801000487 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 644801000488 substrate binding pocket [chemical binding]; other site 644801000489 membrane-bound complex binding site; other site 644801000490 hinge residues; other site 644801000491 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 644801000492 NodB motif; other site 644801000493 putative active site [active] 644801000494 putative catalytic site [active] 644801000495 Zn binding site [ion binding]; other site 644801000496 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 644801000497 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 644801000498 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 644801000499 protein binding site [polypeptide binding]; other site 644801000500 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 644801000501 Catalytic dyad [active] 644801000502 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 644801000503 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 644801000504 Peptidase family M23; Region: Peptidase_M23; pfam01551 644801000505 phosphoglyceromutase; Provisional; Region: PRK05434 644801000506 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 644801000507 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 644801000508 active site residue [active] 644801000509 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 644801000510 GSH binding site [chemical binding]; other site 644801000511 catalytic residues [active] 644801000512 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 644801000513 SecA binding site; other site 644801000514 Preprotein binding site; other site 644801000515 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 644801000516 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 644801000517 NAD(P) binding site [chemical binding]; other site 644801000518 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 644801000519 Uncharacterized conserved protein [Function unknown]; Region: COG2947 644801000520 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 644801000521 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 644801000522 TIGR02449 family protein; Region: TIGR02449 644801000523 hypothetical protein; Reviewed; Region: PRK02166 644801000524 proline aminopeptidase P II; Provisional; Region: PRK10879 644801000525 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 644801000526 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 644801000527 active site 644801000528 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 644801000529 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 644801000530 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 644801000531 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 644801000532 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 644801000533 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 644801000534 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 644801000535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000536 dimer interface [polypeptide binding]; other site 644801000537 conserved gate region; other site 644801000538 putative PBP binding loops; other site 644801000539 ABC-ATPase subunit interface; other site 644801000540 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 644801000541 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 644801000542 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 644801000543 lipoyl attachment site [posttranslational modification]; other site 644801000544 glycine dehydrogenase; Provisional; Region: PRK12566 644801000545 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 644801000546 tetramer interface [polypeptide binding]; other site 644801000547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801000548 catalytic residue [active] 644801000549 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 644801000550 tetramer interface [polypeptide binding]; other site 644801000551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801000552 catalytic residue [active] 644801000553 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 644801000554 G1 box; other site 644801000555 GTP/Mg2+ binding site [chemical binding]; other site 644801000556 Switch I region; other site 644801000557 G2 box; other site 644801000558 G3 box; other site 644801000559 Switch II region; other site 644801000560 G4 box; other site 644801000561 G5 box; other site 644801000562 Cytochrome c553 [Energy production and conversion]; Region: COG2863 644801000563 Cytochrome c; Region: Cytochrom_C; cl11414 644801000564 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 644801000565 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 644801000566 catalytic residues [active] 644801000567 hinge region; other site 644801000568 alpha helical domain; other site 644801000569 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 644801000570 putative catalytic site [active] 644801000571 putative metal binding site [ion binding]; other site 644801000572 putative phosphate binding site [ion binding]; other site 644801000573 putative catalytic site [active] 644801000574 putative phosphate binding site [ion binding]; other site 644801000575 putative metal binding site [ion binding]; other site 644801000576 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801000577 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801000578 metal binding site [ion binding]; metal-binding site 644801000579 active site 644801000580 I-site; other site 644801000581 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 644801000582 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 644801000583 amidase catalytic site [active] 644801000584 Zn binding residues [ion binding]; other site 644801000585 substrate binding site [chemical binding]; other site 644801000586 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 644801000587 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 644801000588 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 644801000589 dimerization interface [polypeptide binding]; other site 644801000590 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 644801000591 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 644801000592 dimer interface [polypeptide binding]; other site 644801000593 phosphorylation site [posttranslational modification] 644801000594 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 644801000595 ATP binding site [chemical binding]; other site 644801000596 Mg2+ binding site [ion binding]; other site 644801000597 G-X-G motif; other site 644801000598 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801000599 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 644801000600 active site 644801000601 phosphorylation site [posttranslational modification] 644801000602 intermolecular recognition site; other site 644801000603 dimerization interface [polypeptide binding]; other site 644801000604 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 644801000605 Walker A motif; other site 644801000606 ATP binding site [chemical binding]; other site 644801000607 Walker B motif; other site 644801000608 arginine finger; other site 644801000609 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801000610 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 644801000611 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 644801000612 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 644801000613 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 644801000614 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 644801000615 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 644801000616 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 644801000617 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 644801000618 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 644801000619 PAS domain; Region: PAS_9; pfam13426 644801000620 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 644801000621 putative active site [active] 644801000622 heme pocket [chemical binding]; other site 644801000623 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801000624 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801000625 dimer interface [polypeptide binding]; other site 644801000626 putative CheW interface [polypeptide binding]; other site 644801000627 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 644801000628 PAS domain; Region: PAS_9; pfam13426 644801000629 putative active site [active] 644801000630 heme pocket [chemical binding]; other site 644801000631 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801000632 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801000633 dimer interface [polypeptide binding]; other site 644801000634 putative CheW interface [polypeptide binding]; other site 644801000635 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644801000636 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644801000637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801000638 metal binding site [ion binding]; metal-binding site 644801000639 active site 644801000640 I-site; other site 644801000641 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 644801000642 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 644801000643 dimerization interface [polypeptide binding]; other site 644801000644 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 644801000645 dimer interface [polypeptide binding]; other site 644801000646 phosphorylation site [posttranslational modification] 644801000647 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 644801000648 ATP binding site [chemical binding]; other site 644801000649 Mg2+ binding site [ion binding]; other site 644801000650 G-X-G motif; other site 644801000651 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 644801000652 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 644801000653 active site 644801000654 phosphorylation site [posttranslational modification] 644801000655 intermolecular recognition site; other site 644801000656 dimerization interface [polypeptide binding]; other site 644801000657 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 644801000658 DNA binding site [nucleotide binding] 644801000659 outer membrane porin, OprD family; Region: OprD; pfam03573 644801000660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 644801000661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 644801000662 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 644801000663 Putative ammonia monooxygenase; Region: AmoA; pfam05145 644801000664 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 644801000665 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 644801000666 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 644801000667 PhoU domain; Region: PhoU; pfam01895 644801000668 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 644801000669 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 644801000670 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 644801000671 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 644801000672 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 644801000673 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 644801000674 AAA domain; Region: AAA_30; pfam13604 644801000675 Family description; Region: UvrD_C_2; pfam13538 644801000676 Predicted permeases [General function prediction only]; Region: COG0679 644801000677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801000678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801000679 metal binding site [ion binding]; metal-binding site 644801000680 active site 644801000681 I-site; other site 644801000682 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 644801000683 PBP superfamily domain; Region: PBP_like_2; cl17296 644801000684 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 644801000685 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 644801000686 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000687 dimer interface [polypeptide binding]; other site 644801000688 conserved gate region; other site 644801000689 putative PBP binding loops; other site 644801000690 ABC-ATPase subunit interface; other site 644801000691 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 644801000692 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 644801000693 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801000694 dimer interface [polypeptide binding]; other site 644801000695 conserved gate region; other site 644801000696 putative PBP binding loops; other site 644801000697 ABC-ATPase subunit interface; other site 644801000698 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 644801000699 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 644801000700 Walker A/P-loop; other site 644801000701 ATP binding site [chemical binding]; other site 644801000702 Q-loop/lid; other site 644801000703 ABC transporter signature motif; other site 644801000704 Walker B; other site 644801000705 D-loop; other site 644801000706 H-loop/switch region; other site 644801000707 transcriptional regulator PhoU; Provisional; Region: PRK11115 644801000708 PhoU domain; Region: PhoU; pfam01895 644801000709 PhoU domain; Region: PhoU; pfam01895 644801000710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801000711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801000712 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 644801000713 putative effector binding pocket; other site 644801000714 dimerization interface [polypeptide binding]; other site 644801000715 EamA-like transporter family; Region: EamA; pfam00892 644801000716 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 644801000717 EamA-like transporter family; Region: EamA; pfam00892 644801000718 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 644801000719 G1 box; other site 644801000720 GTP/Mg2+ binding site [chemical binding]; other site 644801000721 G2 box; other site 644801000722 Switch I region; other site 644801000723 G3 box; other site 644801000724 Switch II region; other site 644801000725 G4 box; other site 644801000726 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 644801000727 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 644801000728 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 644801000729 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 644801000730 putative active site [active] 644801000731 catalytic site [active] 644801000732 putative metal binding site [ion binding]; other site 644801000733 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 644801000734 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 644801000735 folate binding site [chemical binding]; other site 644801000736 NADP+ binding site [chemical binding]; other site 644801000737 Uncharacterized conserved protein [Function unknown]; Region: COG1284 644801000738 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 644801000739 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 644801000740 active site 644801000741 metal binding site [ion binding]; metal-binding site 644801000742 homotetramer interface [polypeptide binding]; other site 644801000743 hydroxyglutarate oxidase; Provisional; Region: PRK11728 644801000744 Predicted dehydrogenase [General function prediction only]; Region: COG0579 644801000745 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 644801000746 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644801000747 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 644801000748 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 644801000749 putative RNA binding site [nucleotide binding]; other site 644801000750 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 644801000751 S-adenosylmethionine binding site [chemical binding]; other site 644801000752 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 644801000753 intracellular protease, PfpI family; Region: PfpI; TIGR01382 644801000754 proposed catalytic triad [active] 644801000755 conserved cys residue [active] 644801000756 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 644801000757 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 644801000758 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 644801000759 DNA binding site [nucleotide binding] 644801000760 catalytic residue [active] 644801000761 H2TH interface [polypeptide binding]; other site 644801000762 putative catalytic residues [active] 644801000763 turnover-facilitating residue; other site 644801000764 intercalation triad [nucleotide binding]; other site 644801000765 8OG recognition residue [nucleotide binding]; other site 644801000766 putative reading head residues; other site 644801000767 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 644801000768 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 644801000769 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 644801000770 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 644801000771 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 644801000772 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 644801000773 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 644801000774 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644801000775 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 644801000776 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 644801000777 active site 644801000778 (T/H)XGH motif; other site 644801000779 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 644801000780 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644801000781 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 644801000782 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 644801000783 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 644801000784 NAD(P) binding site [chemical binding]; other site 644801000785 catalytic residues [active] 644801000786 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801000787 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801000788 Bacterial transcriptional repressor; Region: TetR; pfam13972 644801000789 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 644801000790 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 644801000791 active site 644801000792 homodimer interface [polypeptide binding]; other site 644801000793 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 644801000794 active site 644801000795 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 644801000796 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 644801000797 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 644801000798 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 644801000799 binding surface 644801000800 TPR motif; other site 644801000801 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 644801000802 hypothetical protein; Provisional; Region: PRK09936 644801000803 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 644801000804 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 644801000805 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 644801000806 S-adenosylmethionine binding site [chemical binding]; other site 644801000807 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 644801000808 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 644801000809 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644801000810 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 644801000811 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 644801000812 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644801000813 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 644801000814 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 644801000815 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 644801000816 P loop; other site 644801000817 GTP binding site [chemical binding]; other site 644801000818 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 644801000819 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801000820 Walker A/P-loop; other site 644801000821 ATP binding site [chemical binding]; other site 644801000822 Q-loop/lid; other site 644801000823 ABC transporter signature motif; other site 644801000824 Walker B; other site 644801000825 D-loop; other site 644801000826 H-loop/switch region; other site 644801000827 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 644801000828 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 644801000829 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 644801000830 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801000831 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 644801000832 DNA binding residues [nucleotide binding] 644801000833 CHASE domain; Region: CHASE; pfam03924 644801000834 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 644801000835 PAS fold; Region: PAS_3; pfam08447 644801000836 putative active site [active] 644801000837 heme pocket [chemical binding]; other site 644801000838 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801000839 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 644801000840 dimer interface [polypeptide binding]; other site 644801000841 phosphorylation site [posttranslational modification] 644801000842 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 644801000843 ATP binding site [chemical binding]; other site 644801000844 Mg2+ binding site [ion binding]; other site 644801000845 G-X-G motif; other site 644801000846 Response regulator receiver domain; Region: Response_reg; pfam00072 644801000847 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 644801000848 active site 644801000849 phosphorylation site [posttranslational modification] 644801000850 intermolecular recognition site; other site 644801000851 dimerization interface [polypeptide binding]; other site 644801000852 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 644801000853 PAS domain; Region: PAS_9; pfam13426 644801000854 putative active site [active] 644801000855 heme pocket [chemical binding]; other site 644801000856 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801000857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801000858 metal binding site [ion binding]; metal-binding site 644801000859 active site 644801000860 I-site; other site 644801000861 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 644801000862 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 644801000863 Transglycosylase; Region: Transgly; cl17702 644801000864 Protein of unknown function (DUF423); Region: DUF423; pfam04241 644801000865 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 644801000866 thiS-thiF/thiG interaction site; other site 644801000867 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 644801000868 ThiS interaction site; other site 644801000869 putative active site [active] 644801000870 tetramer interface [polypeptide binding]; other site 644801000871 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 644801000872 S-adenosylmethionine binding site [chemical binding]; other site 644801000873 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644801000874 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 644801000875 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 644801000876 putative substrate binding site [chemical binding]; other site 644801000877 nucleotide binding site [chemical binding]; other site 644801000878 nucleotide binding site [chemical binding]; other site 644801000879 homodimer interface [polypeptide binding]; other site 644801000880 ornithine carbamoyltransferase; Validated; Region: PRK02102 644801000881 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 644801000882 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 644801000883 arginine deiminase; Provisional; Region: PRK01388 644801000884 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 644801000885 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 644801000886 HemN family oxidoreductase; Provisional; Region: PRK05660 644801000887 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 644801000888 FeS/SAM binding site; other site 644801000889 HemN C-terminal domain; Region: HemN_C; pfam06969 644801000890 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 644801000891 active site 644801000892 dimerization interface [polypeptide binding]; other site 644801000893 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 644801000894 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 644801000895 S-adenosylmethionine binding site [chemical binding]; other site 644801000896 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 644801000897 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 644801000898 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 644801000899 Dynamin family; Region: Dynamin_N; pfam00350 644801000900 G1 box; other site 644801000901 GTP/Mg2+ binding site [chemical binding]; other site 644801000902 G2 box; other site 644801000903 Switch I region; other site 644801000904 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 644801000905 G3 box; other site 644801000906 Switch II region; other site 644801000907 GTP/Mg2+ binding site [chemical binding]; other site 644801000908 G4 box; other site 644801000909 G5 box; other site 644801000910 YGGT family; Region: YGGT; pfam02325 644801000911 YGGT family; Region: YGGT; pfam02325 644801000912 pyrroline-5-carboxylate reductase; Region: PLN02688 644801000913 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 644801000914 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 644801000915 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644801000916 catalytic residue [active] 644801000917 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 644801000918 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 644801000919 Walker A motif; other site 644801000920 ATP binding site [chemical binding]; other site 644801000921 Walker B motif; other site 644801000922 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 644801000923 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 644801000924 Walker A motif; other site 644801000925 ATP binding site [chemical binding]; other site 644801000926 Walker B motif; other site 644801000927 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 644801000928 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 644801000929 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 644801000930 FeS/SAM binding site; other site 644801000931 TM2 domain; Region: TM2; cl00984 644801000932 TM2 domain; Region: TM2; cl00984 644801000933 dihydroorotase; Validated; Region: pyrC; PRK09357 644801000934 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 644801000935 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 644801000936 active site 644801000937 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 644801000938 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 644801000939 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 644801000940 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801000941 active site 644801000942 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 644801000943 hypothetical protein; Validated; Region: PRK00228 644801000944 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 644801000945 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 644801000946 glutathione synthetase; Provisional; Region: PRK05246 644801000947 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 644801000948 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 644801000949 Response regulator receiver domain; Region: Response_reg; pfam00072 644801000950 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 644801000951 active site 644801000952 phosphorylation site [posttranslational modification] 644801000953 intermolecular recognition site; other site 644801000954 dimerization interface [polypeptide binding]; other site 644801000955 Response regulator receiver domain; Region: Response_reg; pfam00072 644801000956 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 644801000957 active site 644801000958 phosphorylation site [posttranslational modification] 644801000959 intermolecular recognition site; other site 644801000960 dimerization interface [polypeptide binding]; other site 644801000961 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 644801000962 putative CheA interaction surface; other site 644801000963 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644801000964 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801000965 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801000966 dimer interface [polypeptide binding]; other site 644801000967 putative CheW interface [polypeptide binding]; other site 644801000968 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 644801000969 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 644801000970 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 644801000971 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 644801000972 putative binding surface; other site 644801000973 active site 644801000974 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 644801000975 putative binding surface; other site 644801000976 active site 644801000977 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 644801000978 putative binding surface; other site 644801000979 active site 644801000980 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 644801000981 putative binding surface; other site 644801000982 active site 644801000983 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 644801000984 putative binding surface; other site 644801000985 active site 644801000986 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644801000987 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 644801000988 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 644801000989 ATP binding site [chemical binding]; other site 644801000990 Mg2+ binding site [ion binding]; other site 644801000991 G-X-G motif; other site 644801000992 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 644801000993 Response regulator receiver domain; Region: Response_reg; pfam00072 644801000994 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 644801000995 active site 644801000996 phosphorylation site [posttranslational modification] 644801000997 intermolecular recognition site; other site 644801000998 dimerization interface [polypeptide binding]; other site 644801000999 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 644801001000 CheB methylesterase; Region: CheB_methylest; pfam01339 644801001001 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 644801001002 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 644801001003 RNA methyltransferase, RsmE family; Region: TIGR00046 644801001004 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 644801001005 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 644801001006 inhibitor-cofactor binding pocket; inhibition site 644801001007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801001008 catalytic residue [active] 644801001009 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 644801001010 hypothetical protein; Provisional; Region: PRK03757 644801001011 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 644801001012 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801001013 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801001014 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 644801001015 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644801001016 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 644801001017 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 644801001018 ATP binding site [chemical binding]; other site 644801001019 Mg++ binding site [ion binding]; other site 644801001020 motif III; other site 644801001021 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 644801001022 nucleotide binding region [chemical binding]; other site 644801001023 ATP-binding site [chemical binding]; other site 644801001024 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 644801001025 FAD binding site [chemical binding]; other site 644801001026 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 644801001027 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 644801001028 homotetramer interface [polypeptide binding]; other site 644801001029 ligand binding site [chemical binding]; other site 644801001030 catalytic site [active] 644801001031 NAD binding site [chemical binding]; other site 644801001032 Cytochrome C' Region: Cytochrom_C_2; pfam01322 644801001033 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 644801001034 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 644801001035 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 644801001036 nucleotide binding pocket [chemical binding]; other site 644801001037 K-X-D-G motif; other site 644801001038 catalytic site [active] 644801001039 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 644801001040 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 644801001041 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 644801001042 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 644801001043 FAD binding pocket [chemical binding]; other site 644801001044 FAD binding motif [chemical binding]; other site 644801001045 phosphate binding motif [ion binding]; other site 644801001046 beta-alpha-beta structure motif; other site 644801001047 NAD binding pocket [chemical binding]; other site 644801001048 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 644801001049 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 644801001050 Walker A/P-loop; other site 644801001051 ATP binding site [chemical binding]; other site 644801001052 Q-loop/lid; other site 644801001053 ABC transporter signature motif; other site 644801001054 Walker B; other site 644801001055 D-loop; other site 644801001056 H-loop/switch region; other site 644801001057 ABC-2 type transporter; Region: ABC2_membrane; cl17235 644801001058 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 644801001059 S-adenosylmethionine synthetase; Validated; Region: PRK05250 644801001060 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 644801001061 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 644801001062 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 644801001063 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 644801001064 putative DNA binding site [nucleotide binding]; other site 644801001065 putative Zn2+ binding site [ion binding]; other site 644801001066 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644801001067 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 644801001068 S-adenosylmethionine binding site [chemical binding]; other site 644801001069 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 644801001070 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 644801001071 substrate binding pocket [chemical binding]; other site 644801001072 active site 644801001073 iron coordination sites [ion binding]; other site 644801001074 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 644801001075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801001076 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 644801001077 dimerization interface [polypeptide binding]; other site 644801001078 substrate binding pocket [chemical binding]; other site 644801001079 transketolase; Reviewed; Region: PRK12753 644801001080 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 644801001081 TPP-binding site [chemical binding]; other site 644801001082 dimer interface [polypeptide binding]; other site 644801001083 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 644801001084 PYR/PP interface [polypeptide binding]; other site 644801001085 dimer interface [polypeptide binding]; other site 644801001086 TPP binding site [chemical binding]; other site 644801001087 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644801001088 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 644801001089 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 644801001090 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 644801001091 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 644801001092 Phosphoglycerate kinase; Region: PGK; pfam00162 644801001093 substrate binding site [chemical binding]; other site 644801001094 hinge regions; other site 644801001095 ADP binding site [chemical binding]; other site 644801001096 catalytic site [active] 644801001097 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 644801001098 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 644801001099 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 644801001100 intersubunit interface [polypeptide binding]; other site 644801001101 active site 644801001102 zinc binding site [ion binding]; other site 644801001103 Na+ binding site [ion binding]; other site 644801001104 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801001105 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 644801001106 active site 644801001107 phosphorylation site [posttranslational modification] 644801001108 intermolecular recognition site; other site 644801001109 dimerization interface [polypeptide binding]; other site 644801001110 Methyltransferase domain; Region: Methyltransf_23; pfam13489 644801001111 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 644801001112 S-adenosylmethionine binding site [chemical binding]; other site 644801001113 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 644801001114 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 644801001115 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 644801001116 heme-binding site [chemical binding]; other site 644801001117 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 644801001118 PAS fold; Region: PAS_3; pfam08447 644801001119 putative active site [active] 644801001120 heme pocket [chemical binding]; other site 644801001121 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801001122 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801001123 metal binding site [ion binding]; metal-binding site 644801001124 active site 644801001125 I-site; other site 644801001126 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 644801001127 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 644801001128 HI0933-like protein; Region: HI0933_like; pfam03486 644801001129 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644801001130 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 644801001131 substrate binding pocket [chemical binding]; other site 644801001132 membrane-bound complex binding site; other site 644801001133 hinge residues; other site 644801001134 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 644801001135 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 644801001136 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 644801001137 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 644801001138 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 644801001139 ATP binding site [chemical binding]; other site 644801001140 Mg++ binding site [ion binding]; other site 644801001141 motif III; other site 644801001142 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 644801001143 nucleotide binding region [chemical binding]; other site 644801001144 ATP-binding site [chemical binding]; other site 644801001145 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 644801001146 putative RNA binding site [nucleotide binding]; other site 644801001147 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 644801001148 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 644801001149 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 644801001150 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 644801001151 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 644801001152 Na binding site [ion binding]; other site 644801001153 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 644801001154 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 644801001155 active site 644801001156 catalytic site [active] 644801001157 substrate binding site [chemical binding]; other site 644801001158 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 644801001159 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 644801001160 ligand binding site [chemical binding]; other site 644801001161 flexible hinge region; other site 644801001162 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 644801001163 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 644801001164 metal binding triad; other site 644801001165 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 644801001166 dimerization interface [polypeptide binding]; other site 644801001167 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801001168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801001169 dimer interface [polypeptide binding]; other site 644801001170 putative CheW interface [polypeptide binding]; other site 644801001171 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 644801001172 active site 644801001173 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 644801001174 ACT domain; Region: ACT_6; pfam13740 644801001175 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 644801001176 Predicted permeases [General function prediction only]; Region: RarD; COG2962 644801001177 EamA-like transporter family; Region: EamA; pfam00892 644801001178 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 644801001179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801001180 NAD(P) binding site [chemical binding]; other site 644801001181 active site 644801001182 Trehalase; Region: Trehalase; cl17346 644801001183 Transcriptional regulators [Transcription]; Region: FadR; COG2186 644801001184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801001185 DNA-binding site [nucleotide binding]; DNA binding site 644801001186 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 644801001187 DctM-like transporters; Region: DctM; pfam06808 644801001188 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 644801001189 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 644801001190 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801001191 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 644801001192 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 644801001193 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 644801001194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801001195 active site 644801001196 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 644801001197 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 644801001198 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 644801001199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801001200 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 644801001201 dimerization interface [polypeptide binding]; other site 644801001202 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 644801001203 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 644801001204 active site pocket [active] 644801001205 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 644801001206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 644801001207 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 644801001208 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 644801001209 active site 644801001210 tetramer interface [polypeptide binding]; other site 644801001211 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 644801001212 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 644801001213 putative active site [active] 644801001214 catalytic residue [active] 644801001215 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 644801001216 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 644801001217 NAD(P) binding site [chemical binding]; other site 644801001218 catalytic residues [active] 644801001219 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 644801001220 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 644801001221 active site 644801001222 tetramer interface [polypeptide binding]; other site 644801001223 galactarate dehydratase; Region: galactar-dH20; TIGR03248 644801001224 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 644801001225 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 644801001226 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 644801001227 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 644801001228 putative ligand binding site [chemical binding]; other site 644801001229 NAD binding site [chemical binding]; other site 644801001230 catalytic site [active] 644801001231 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 644801001232 active site 644801001233 catalytic residues [active] 644801001234 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 644801001235 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 644801001236 N-terminal plug; other site 644801001237 ligand-binding site [chemical binding]; other site 644801001238 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 644801001239 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 644801001240 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 644801001241 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 644801001242 outer membrane porin, OprD family; Region: OprD; pfam03573 644801001243 Water Stress and Hypersensitive response; Region: WHy; smart00769 644801001244 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 644801001245 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 644801001246 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 644801001247 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 644801001248 dimer interface [polypeptide binding]; other site 644801001249 active site residues [active] 644801001250 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 644801001251 short chain dehydrogenase; Provisional; Region: PRK07109 644801001252 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 644801001253 putative NAD(P) binding site [chemical binding]; other site 644801001254 active site 644801001255 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 644801001256 CHASE3 domain; Region: CHASE3; pfam05227 644801001257 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644801001258 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 644801001259 dimer interface [polypeptide binding]; other site 644801001260 phosphorylation site [posttranslational modification] 644801001261 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 644801001262 ATP binding site [chemical binding]; other site 644801001263 Mg2+ binding site [ion binding]; other site 644801001264 G-X-G motif; other site 644801001265 Response regulator receiver domain; Region: Response_reg; pfam00072 644801001266 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 644801001267 active site 644801001268 phosphorylation site [posttranslational modification] 644801001269 intermolecular recognition site; other site 644801001270 dimerization interface [polypeptide binding]; other site 644801001271 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801001272 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 644801001273 active site 644801001274 phosphorylation site [posttranslational modification] 644801001275 intermolecular recognition site; other site 644801001276 Response regulator receiver domain; Region: Response_reg; pfam00072 644801001277 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 644801001278 active site 644801001279 phosphorylation site [posttranslational modification] 644801001280 intermolecular recognition site; other site 644801001281 dimerization interface [polypeptide binding]; other site 644801001282 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 644801001283 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 644801001284 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 644801001285 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 644801001286 CheB methylesterase; Region: CheB_methylest; pfam01339 644801001287 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 644801001288 active site 644801001289 phosphorylation site [posttranslational modification] 644801001290 intermolecular recognition site; other site 644801001291 dimerization interface [polypeptide binding]; other site 644801001292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801001293 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 644801001294 dimer interface [polypeptide binding]; other site 644801001295 phosphorylation site [posttranslational modification] 644801001296 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 644801001297 ATP binding site [chemical binding]; other site 644801001298 Mg2+ binding site [ion binding]; other site 644801001299 G-X-G motif; other site 644801001300 Uncharacterized conserved protein [Function unknown]; Region: COG0397 644801001301 hypothetical protein; Validated; Region: PRK00029 644801001302 hypothetical protein; Provisional; Region: PRK11281 644801001303 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 644801001304 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644801001305 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 644801001306 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 644801001307 TrkA-C domain; Region: TrkA_C; pfam02080 644801001308 Transporter associated domain; Region: CorC_HlyC; smart01091 644801001309 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644801001310 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 644801001311 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801001312 active site 644801001313 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644801001314 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 644801001315 substrate binding pocket [chemical binding]; other site 644801001316 substrate-Mg2+ binding site; other site 644801001317 aspartate-rich region 1; other site 644801001318 aspartate-rich region 2; other site 644801001319 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 644801001320 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 644801001321 homotetramer interface [polypeptide binding]; other site 644801001322 FMN binding site [chemical binding]; other site 644801001323 homodimer contacts [polypeptide binding]; other site 644801001324 putative active site [active] 644801001325 putative substrate binding site [chemical binding]; other site 644801001326 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 644801001327 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 644801001328 active site 644801001329 TDP-binding site; other site 644801001330 acceptor substrate-binding pocket; other site 644801001331 homodimer interface [polypeptide binding]; other site 644801001332 lycopene cyclase; Region: lycopene_cycl; TIGR01789 644801001333 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 644801001334 phytoene desaturase; Region: crtI_fam; TIGR02734 644801001335 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644801001336 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 644801001337 active site lid residues [active] 644801001338 substrate binding pocket [chemical binding]; other site 644801001339 catalytic residues [active] 644801001340 substrate-Mg2+ binding site; other site 644801001341 aspartate-rich region 1; other site 644801001342 aspartate-rich region 2; other site 644801001343 beta-carotene hydroxylase; Region: PLN02601 644801001344 Nitronate monooxygenase; Region: NMO; pfam03060 644801001345 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 644801001346 FMN binding site [chemical binding]; other site 644801001347 substrate binding site [chemical binding]; other site 644801001348 putative catalytic residue [active] 644801001349 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 644801001350 serine/threonine protein kinase; Provisional; Region: PRK11768 644801001351 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 644801001352 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 644801001353 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801001354 active site 644801001355 biotin synthase; Provisional; Region: PRK15108 644801001356 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 644801001357 FeS/SAM binding site; other site 644801001358 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 644801001359 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 644801001360 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 644801001361 substrate-cofactor binding pocket; other site 644801001362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801001363 catalytic residue [active] 644801001364 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 644801001365 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 644801001366 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 644801001367 S-adenosylmethionine binding site [chemical binding]; other site 644801001368 AAA domain; Region: AAA_26; pfam13500 644801001369 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 644801001370 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 644801001371 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644801001372 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801001373 active site 644801001374 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644801001375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801001376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801001377 metal binding site [ion binding]; metal-binding site 644801001378 active site 644801001379 I-site; other site 644801001380 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 644801001381 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644801001382 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801001383 active site 644801001384 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644801001385 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 644801001386 active site 644801001387 DNA binding site [nucleotide binding] 644801001388 Int/Topo IB signature motif; other site 644801001389 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 644801001390 active site 644801001391 DNA binding site [nucleotide binding] 644801001392 Int/Topo IB signature motif; other site 644801001393 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 644801001394 active site 644801001395 catalytic residues [active] 644801001396 DNA binding site [nucleotide binding] 644801001397 Int/Topo IB signature motif; other site 644801001398 putative transposase OrfB; Reviewed; Region: PHA02517 644801001399 HTH-like domain; Region: HTH_21; pfam13276 644801001400 Integrase core domain; Region: rve; pfam00665 644801001401 Integrase core domain; Region: rve_2; pfam13333 644801001402 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 644801001403 Transposase; Region: HTH_Tnp_1; pfam01527 644801001404 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 644801001405 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 644801001406 Walker A/P-loop; other site 644801001407 ATP binding site [chemical binding]; other site 644801001408 Q-loop/lid; other site 644801001409 ABC transporter signature motif; other site 644801001410 Walker B; other site 644801001411 D-loop; other site 644801001412 H-loop/switch region; other site 644801001413 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 644801001414 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 644801001415 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 644801001416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801001417 dimer interface [polypeptide binding]; other site 644801001418 conserved gate region; other site 644801001419 putative PBP binding loops; other site 644801001420 ABC-ATPase subunit interface; other site 644801001421 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 644801001422 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 644801001423 homodimer interface [polypeptide binding]; other site 644801001424 ligand binding site [chemical binding]; other site 644801001425 NAD binding site [chemical binding]; other site 644801001426 catalytic site [active] 644801001427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801001428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801001429 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 644801001430 dimerization interface [polypeptide binding]; other site 644801001431 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 644801001432 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644801001433 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 644801001434 non-specific DNA binding site [nucleotide binding]; other site 644801001435 salt bridge; other site 644801001436 sequence-specific DNA binding site [nucleotide binding]; other site 644801001437 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 644801001438 NACHT domain; Region: NACHT; pfam05729 644801001439 Walker A motif; other site 644801001440 ATP binding site [chemical binding]; other site 644801001441 Walker B motif; other site 644801001442 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 644801001443 active site 644801001444 catalytic triad [active] 644801001445 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644801001446 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 644801001447 Walker A motif; other site 644801001448 ATP binding site [chemical binding]; other site 644801001449 Walker B motif; other site 644801001450 arginine finger; other site 644801001451 methionine sulfoxide reductase A; Provisional; Region: PRK14054 644801001452 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 644801001453 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 644801001454 putative active site [active] 644801001455 heme pocket [chemical binding]; other site 644801001456 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644801001457 GAF domain; Region: GAF; pfam01590 644801001458 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 644801001459 PAS domain; Region: PAS_9; pfam13426 644801001460 putative active site [active] 644801001461 heme pocket [chemical binding]; other site 644801001462 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801001463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801001464 metal binding site [ion binding]; metal-binding site 644801001465 active site 644801001466 I-site; other site 644801001467 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 644801001468 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 644801001469 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 644801001470 E3 interaction surface; other site 644801001471 lipoyl attachment site [posttranslational modification]; other site 644801001472 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 644801001473 E3 interaction surface; other site 644801001474 lipoyl attachment site [posttranslational modification]; other site 644801001475 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 644801001476 E3 interaction surface; other site 644801001477 lipoyl attachment site [posttranslational modification]; other site 644801001478 e3 binding domain; Region: E3_binding; pfam02817 644801001479 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 644801001480 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 644801001481 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 644801001482 dimer interface [polypeptide binding]; other site 644801001483 TPP-binding site [chemical binding]; other site 644801001484 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 644801001485 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 644801001486 metal binding triad; other site 644801001487 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 644801001488 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 644801001489 metal binding triad; other site 644801001490 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 644801001491 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 644801001492 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 644801001493 homodimer interface [polypeptide binding]; other site 644801001494 substrate-cofactor binding pocket; other site 644801001495 catalytic residue [active] 644801001496 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644801001497 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 644801001498 putative active site [active] 644801001499 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644801001500 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 644801001501 putative active site [active] 644801001502 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644801001503 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 644801001504 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 644801001505 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 644801001506 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 644801001507 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 644801001508 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 644801001509 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 644801001510 active site 644801001511 ATP binding site [chemical binding]; other site 644801001512 serine/threonine protein kinase; Provisional; Region: PRK14879 644801001513 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 644801001514 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 644801001515 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 644801001516 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 644801001517 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644801001518 putative ADP-binding pocket [chemical binding]; other site 644801001519 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 644801001520 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 644801001521 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 644801001522 trimer interface [polypeptide binding]; other site 644801001523 active site 644801001524 substrate binding site [chemical binding]; other site 644801001525 CoA binding site [chemical binding]; other site 644801001526 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 644801001527 active site 644801001528 substrate binding site [chemical binding]; other site 644801001529 ATP binding site [chemical binding]; other site 644801001530 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 644801001531 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644801001532 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 644801001533 Walker A/P-loop; other site 644801001534 ATP binding site [chemical binding]; other site 644801001535 Q-loop/lid; other site 644801001536 ABC transporter signature motif; other site 644801001537 Walker B; other site 644801001538 D-loop; other site 644801001539 H-loop/switch region; other site 644801001540 Mig-14; Region: Mig-14; pfam07395 644801001541 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 644801001542 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 644801001543 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 644801001544 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 644801001545 putative ribose interaction site [chemical binding]; other site 644801001546 putative ADP binding site [chemical binding]; other site 644801001547 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 644801001548 active site 644801001549 nucleotide binding site [chemical binding]; other site 644801001550 HIGH motif; other site 644801001551 KMSKS motif; other site 644801001552 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 644801001553 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 644801001554 active site 644801001555 catalytic tetrad [active] 644801001556 FAD dependent oxidoreductase; Region: DAO; pfam01266 644801001557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644801001558 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 644801001559 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 644801001560 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 644801001561 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 644801001562 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 644801001563 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 644801001564 ThiC-associated domain; Region: ThiC-associated; pfam13667 644801001565 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 644801001566 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 644801001567 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 644801001568 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 644801001569 dimer interface [polypeptide binding]; other site 644801001570 ADP-ribose binding site [chemical binding]; other site 644801001571 active site 644801001572 nudix motif; other site 644801001573 metal binding site [ion binding]; metal-binding site 644801001574 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 644801001575 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 644801001576 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644801001577 active site 644801001578 metal binding site [ion binding]; metal-binding site 644801001579 hexamer interface [polypeptide binding]; other site 644801001580 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 644801001581 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644801001582 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 644801001583 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 644801001584 ATP binding site [chemical binding]; other site 644801001585 Mg2+ binding site [ion binding]; other site 644801001586 G-X-G motif; other site 644801001587 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 644801001588 anchoring element; other site 644801001589 dimer interface [polypeptide binding]; other site 644801001590 ATP binding site [chemical binding]; other site 644801001591 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 644801001592 active site 644801001593 metal binding site [ion binding]; metal-binding site 644801001594 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 644801001595 SdiA-regulated; Region: SdiA-regulated; cd09971 644801001596 putative active site [active] 644801001597 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 644801001598 catalytic motif [active] 644801001599 Catalytic residue [active] 644801001600 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 644801001601 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 644801001602 CAP-like domain; other site 644801001603 active site 644801001604 primary dimer interface [polypeptide binding]; other site 644801001605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 644801001606 Protein of unknown function (DUF330); Region: DUF330; pfam03886 644801001607 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 644801001608 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 644801001609 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 644801001610 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 644801001611 phosphoserine phosphatase SerB; Region: serB; TIGR00338 644801001612 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 644801001613 motif II; other site 644801001614 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 644801001615 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 644801001616 tetramer interface [polypeptide binding]; other site 644801001617 catalytic Zn binding site [ion binding]; other site 644801001618 NADP binding site [chemical binding]; other site 644801001619 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644801001620 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 644801001621 active site 644801001622 phosphorylation site [posttranslational modification] 644801001623 intermolecular recognition site; other site 644801001624 dimerization interface [polypeptide binding]; other site 644801001625 PAS domain S-box; Region: sensory_box; TIGR00229 644801001626 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 644801001627 putative active site [active] 644801001628 heme pocket [chemical binding]; other site 644801001629 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801001630 metal binding site [ion binding]; metal-binding site 644801001631 active site 644801001632 I-site; other site 644801001633 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 644801001634 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 644801001635 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 644801001636 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 644801001637 active site residue [active] 644801001638 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 644801001639 active site residue [active] 644801001640 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 644801001641 flagellar motor protein MotA; Validated; Region: PRK09110 644801001642 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 644801001643 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 644801001644 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801001645 ligand binding site [chemical binding]; other site 644801001646 GTPase RsgA; Reviewed; Region: PRK12288 644801001647 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 644801001648 RNA binding site [nucleotide binding]; other site 644801001649 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 644801001650 GTPase/Zn-binding domain interface [polypeptide binding]; other site 644801001651 GTP/Mg2+ binding site [chemical binding]; other site 644801001652 G4 box; other site 644801001653 G5 box; other site 644801001654 G1 box; other site 644801001655 Switch I region; other site 644801001656 G2 box; other site 644801001657 G3 box; other site 644801001658 Switch II region; other site 644801001659 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 644801001660 catalytic site [active] 644801001661 putative active site [active] 644801001662 putative substrate binding site [chemical binding]; other site 644801001663 dimer interface [polypeptide binding]; other site 644801001664 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 644801001665 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 644801001666 NAD binding site [chemical binding]; other site 644801001667 active site 644801001668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 644801001669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 644801001670 MORN repeat; Region: MORN; cl14787 644801001671 Peptidase C13 family; Region: Peptidase_C13; cl02159 644801001672 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 644801001673 putative active site [active] 644801001674 putative catalytic site [active] 644801001675 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 644801001676 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 644801001677 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 644801001678 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 644801001679 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 644801001680 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 644801001681 active site 644801001682 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 644801001683 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 644801001684 putative catalytic cysteine [active] 644801001685 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 644801001686 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 644801001687 active site 644801001688 (T/H)XGH motif; other site 644801001689 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 644801001690 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 644801001691 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 644801001692 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 644801001693 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 644801001694 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 644801001695 Transglycosylase SLT domain; Region: SLT_2; pfam13406 644801001696 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 644801001697 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644801001698 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 644801001699 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 644801001700 Sporulation related domain; Region: SPOR; pfam05036 644801001701 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 644801001702 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 644801001703 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 644801001704 Protein of unknown function (DUF493); Region: DUF493; cl01102 644801001705 lipoate-protein ligase B; Provisional; Region: PRK14342 644801001706 lipoyl synthase; Provisional; Region: PRK05481 644801001707 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 644801001708 FeS/SAM binding site; other site 644801001709 Transglycosylase SLT domain; Region: SLT_2; pfam13406 644801001710 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 644801001711 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644801001712 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 644801001713 Domain of unknown function; Region: DUF331; cl01149 644801001714 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 644801001715 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 644801001716 Lipopolysaccharide-assembly; Region: LptE; cl01125 644801001717 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 644801001718 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 644801001719 HIGH motif; other site 644801001720 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644801001721 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644801001722 active site 644801001723 KMSKS motif; other site 644801001724 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 644801001725 tRNA binding surface [nucleotide binding]; other site 644801001726 Uncharacterized conserved protein [Function unknown]; Region: COG1434 644801001727 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 644801001728 putative active site [active] 644801001729 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 644801001730 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 644801001731 putative active site [active] 644801001732 catalytic triad [active] 644801001733 putative dimer interface [polypeptide binding]; other site 644801001734 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 644801001735 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 644801001736 Transporter associated domain; Region: CorC_HlyC; smart01091 644801001737 metal-binding heat shock protein; Provisional; Region: PRK00016 644801001738 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 644801001739 PhoH-like protein; Region: PhoH; pfam02562 644801001740 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 644801001741 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 644801001742 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 644801001743 FeS/SAM binding site; other site 644801001744 TRAM domain; Region: TRAM; pfam01938 644801001745 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 644801001746 Sel1-like repeats; Region: SEL1; smart00671 644801001747 Sel1-like repeats; Region: SEL1; smart00671 644801001748 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 644801001749 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 644801001750 inhibitor-cofactor binding pocket; inhibition site 644801001751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801001752 catalytic residue [active] 644801001753 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 644801001754 thiamine phosphate binding site [chemical binding]; other site 644801001755 active site 644801001756 pyrophosphate binding site [ion binding]; other site 644801001757 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 644801001758 dimer interface [polypeptide binding]; other site 644801001759 substrate binding site [chemical binding]; other site 644801001760 ATP binding site [chemical binding]; other site 644801001761 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644801001762 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644801001763 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 644801001764 dimer interface [polypeptide binding]; other site 644801001765 phosphorylation site [posttranslational modification] 644801001766 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 644801001767 ATP binding site [chemical binding]; other site 644801001768 Mg2+ binding site [ion binding]; other site 644801001769 G-X-G motif; other site 644801001770 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801001771 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801001772 active site 644801001773 Ion transport protein; Region: Ion_trans; pfam00520 644801001774 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644801001775 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 644801001776 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 644801001777 AMP nucleosidase; Provisional; Region: PRK08292 644801001778 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 644801001779 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 644801001780 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 644801001781 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 644801001782 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 644801001783 G1 box; other site 644801001784 GTP/Mg2+ binding site [chemical binding]; other site 644801001785 G2 box; other site 644801001786 Switch I region; other site 644801001787 G3 box; other site 644801001788 Switch II region; other site 644801001789 G4 box; other site 644801001790 G5 box; other site 644801001791 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 644801001792 UreF; Region: UreF; pfam01730 644801001793 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 644801001794 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 644801001795 dimer interface [polypeptide binding]; other site 644801001796 catalytic residues [active] 644801001797 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 644801001798 EamA-like transporter family; Region: EamA; pfam00892 644801001799 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 644801001800 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 644801001801 tetramer interface [polypeptide binding]; other site 644801001802 active site 644801001803 Mg2+/Mn2+ binding site [ion binding]; other site 644801001804 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 644801001805 hypothetical protein; Provisional; Region: PRK11019 644801001806 GAF domain; Region: GAF; pfam01590 644801001807 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 644801001808 dimer interface [polypeptide binding]; other site 644801001809 phosphorylation site [posttranslational modification] 644801001810 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 644801001811 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 644801001812 ATP binding site [chemical binding]; other site 644801001813 Mg2+ binding site [ion binding]; other site 644801001814 G-X-G motif; other site 644801001815 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 644801001816 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 644801001817 Na binding site [ion binding]; other site 644801001818 putative substrate binding site [chemical binding]; other site 644801001819 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801001820 urease subunit alpha; Reviewed; Region: ureC; PRK13207 644801001821 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 644801001822 subunit interactions [polypeptide binding]; other site 644801001823 active site 644801001824 flap region; other site 644801001825 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 644801001826 gamma-beta subunit interface [polypeptide binding]; other site 644801001827 alpha-beta subunit interface [polypeptide binding]; other site 644801001828 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 644801001829 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801001830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 644801001831 Coenzyme A binding pocket [chemical binding]; other site 644801001832 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 644801001833 alpha-gamma subunit interface [polypeptide binding]; other site 644801001834 beta-gamma subunit interface [polypeptide binding]; other site 644801001835 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 644801001836 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 644801001837 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 644801001838 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644801001839 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 644801001840 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 644801001841 motif II; other site 644801001842 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 644801001843 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 644801001844 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644801001845 Walker A/P-loop; other site 644801001846 ATP binding site [chemical binding]; other site 644801001847 Q-loop/lid; other site 644801001848 ABC transporter signature motif; other site 644801001849 Walker B; other site 644801001850 D-loop; other site 644801001851 H-loop/switch region; other site 644801001852 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 644801001853 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 644801001854 Walker A/P-loop; other site 644801001855 ATP binding site [chemical binding]; other site 644801001856 Q-loop/lid; other site 644801001857 ABC transporter signature motif; other site 644801001858 Walker B; other site 644801001859 D-loop; other site 644801001860 H-loop/switch region; other site 644801001861 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 644801001862 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 644801001863 TM-ABC transporter signature motif; other site 644801001864 HEAT repeats; Region: HEAT_2; pfam13646 644801001865 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 644801001866 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644801001867 TM-ABC transporter signature motif; other site 644801001868 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644801001869 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 644801001870 putative ligand binding site [chemical binding]; other site 644801001871 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 644801001872 pseudouridine synthase; Region: TIGR00093 644801001873 active site 644801001874 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 644801001875 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 644801001876 heme-binding site [chemical binding]; other site 644801001877 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801001878 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 644801001879 putative DNA binding site [nucleotide binding]; other site 644801001880 putative Zn2+ binding site [ion binding]; other site 644801001881 AsnC family; Region: AsnC_trans_reg; pfam01037 644801001882 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 644801001883 Cation efflux family; Region: Cation_efflux; cl00316 644801001884 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 644801001885 ATP binding site [chemical binding]; other site 644801001886 putative Mg++ binding site [ion binding]; other site 644801001887 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 644801001888 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644801001889 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 644801001890 non-specific DNA binding site [nucleotide binding]; other site 644801001891 salt bridge; other site 644801001892 sequence-specific DNA binding site [nucleotide binding]; other site 644801001893 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 644801001894 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 644801001895 active site 644801001896 phosphorylation site [posttranslational modification] 644801001897 intermolecular recognition site; other site 644801001898 dimerization interface [polypeptide binding]; other site 644801001899 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 644801001900 DNA binding site [nucleotide binding] 644801001901 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 644801001902 Multicopper oxidase; Region: Cu-oxidase; pfam00394 644801001903 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 644801001904 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 644801001905 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801001906 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 644801001907 dimerization interface [polypeptide binding]; other site 644801001908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801001909 NAD(P) binding site [chemical binding]; other site 644801001910 active site 644801001911 Domain of unknown function (DUF305); Region: DUF305; cl17794 644801001912 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 644801001913 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 644801001914 HAMP domain; Region: HAMP; pfam00672 644801001915 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 644801001916 dimer interface [polypeptide binding]; other site 644801001917 phosphorylation site [posttranslational modification] 644801001918 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 644801001919 ATP binding site [chemical binding]; other site 644801001920 Mg2+ binding site [ion binding]; other site 644801001921 G-X-G motif; other site 644801001922 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 644801001923 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 644801001924 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 644801001925 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801001926 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 644801001927 Outer membrane efflux protein; Region: OEP; pfam02321 644801001928 YHS domain; Region: YHS; pfam04945 644801001929 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 644801001930 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644801001931 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 644801001932 motif II; other site 644801001933 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 644801001934 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 644801001935 motif II; other site 644801001936 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 644801001937 metal-binding site [ion binding] 644801001938 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 644801001939 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 644801001940 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 644801001941 DNA binding residues [nucleotide binding] 644801001942 dimer interface [polypeptide binding]; other site 644801001943 putative metal binding site [ion binding]; other site 644801001944 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 644801001945 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 644801001946 dimerization interface [polypeptide binding]; other site 644801001947 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 644801001948 dimer interface [polypeptide binding]; other site 644801001949 phosphorylation site [posttranslational modification] 644801001950 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 644801001951 ATP binding site [chemical binding]; other site 644801001952 Mg2+ binding site [ion binding]; other site 644801001953 G-X-G motif; other site 644801001954 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 644801001955 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 644801001956 active site 644801001957 phosphorylation site [posttranslational modification] 644801001958 intermolecular recognition site; other site 644801001959 dimerization interface [polypeptide binding]; other site 644801001960 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 644801001961 DNA binding site [nucleotide binding] 644801001962 outer membrane porin, OprD family; Region: OprD; pfam03573 644801001963 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 644801001964 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801001965 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 644801001966 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801001967 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 644801001968 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 644801001969 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 644801001970 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 644801001971 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 644801001972 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 644801001973 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 644801001974 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 644801001975 P-loop containing region of AAA domain; Region: AAA_29; cl17516 644801001976 AAA domain; Region: AAA_21; pfam13304 644801001977 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 644801001978 putative active site [active] 644801001979 putative metal-binding site [ion binding]; other site 644801001980 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 644801001981 Part of AAA domain; Region: AAA_19; pfam13245 644801001982 Family description; Region: UvrD_C_2; pfam13538 644801001983 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 644801001984 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 644801001985 ATP binding site [chemical binding]; other site 644801001986 putative Mg++ binding site [ion binding]; other site 644801001987 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 644801001988 nucleotide binding region [chemical binding]; other site 644801001989 ATP-binding site [chemical binding]; other site 644801001990 Helicase associated domain (HA2); Region: HA2; pfam04408 644801001991 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 644801001992 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 644801001993 active site 644801001994 catalytic residues [active] 644801001995 DNA binding site [nucleotide binding] 644801001996 Int/Topo IB signature motif; other site 644801001997 BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in...; Region: BAH; cl02608 644801001998 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 644801001999 nucleotide binding region [chemical binding]; other site 644801002000 ATP-binding site [chemical binding]; other site 644801002001 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 644801002002 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 644801002003 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 644801002004 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644801002005 substrate binding pocket [chemical binding]; other site 644801002006 membrane-bound complex binding site; other site 644801002007 hinge residues; other site 644801002008 short chain dehydrogenase; Provisional; Region: PRK06181 644801002009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801002010 NAD(P) binding site [chemical binding]; other site 644801002011 active site 644801002012 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801002013 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 644801002014 Uncharacterized conserved protein [Function unknown]; Region: COG1432 644801002015 LabA_like proteins; Region: LabA; cd10911 644801002016 putative metal binding site [ion binding]; other site 644801002017 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 644801002018 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 644801002019 TPP-binding site; other site 644801002020 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 644801002021 PYR/PP interface [polypeptide binding]; other site 644801002022 dimer interface [polypeptide binding]; other site 644801002023 TPP binding site [chemical binding]; other site 644801002024 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644801002025 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 644801002026 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 644801002027 substrate binding pocket [chemical binding]; other site 644801002028 chain length determination region; other site 644801002029 substrate-Mg2+ binding site; other site 644801002030 catalytic residues [active] 644801002031 aspartate-rich region 1; other site 644801002032 active site lid residues [active] 644801002033 aspartate-rich region 2; other site 644801002034 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 644801002035 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 644801002036 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 644801002037 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 644801002038 IucA / IucC family; Region: IucA_IucC; pfam04183 644801002039 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 644801002040 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 644801002041 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 644801002042 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 644801002043 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 644801002044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801002045 catalytic residue [active] 644801002046 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 644801002047 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801002048 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 644801002049 DNA binding residues [nucleotide binding] 644801002050 PAS domain S-box; Region: sensory_box; TIGR00229 644801002051 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 644801002052 putative active site [active] 644801002053 heme pocket [chemical binding]; other site 644801002054 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801002055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801002056 active site 644801002057 I-site; other site 644801002058 metal binding site [ion binding]; metal-binding site 644801002059 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 644801002060 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644801002061 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 644801002062 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 644801002063 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 644801002064 active site 644801002065 phosphorylation site [posttranslational modification] 644801002066 intermolecular recognition site; other site 644801002067 CheB methylesterase; Region: CheB_methylest; pfam01339 644801002068 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 644801002069 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 644801002070 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 644801002071 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644801002072 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 644801002073 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 644801002074 dimerization interface [polypeptide binding]; other site 644801002075 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801002076 dimer interface [polypeptide binding]; other site 644801002077 putative CheW interface [polypeptide binding]; other site 644801002078 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 644801002079 putative binding surface; other site 644801002080 active site 644801002081 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 644801002082 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644801002083 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 644801002084 ATP binding site [chemical binding]; other site 644801002085 Mg2+ binding site [ion binding]; other site 644801002086 G-X-G motif; other site 644801002087 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 644801002088 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 644801002089 anti sigma factor interaction site; other site 644801002090 regulatory phosphorylation site [posttranslational modification]; other site 644801002091 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801002092 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 644801002093 active site 644801002094 phosphorylation site [posttranslational modification] 644801002095 intermolecular recognition site; other site 644801002096 dimerization interface [polypeptide binding]; other site 644801002097 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801002098 dimer interface [polypeptide binding]; other site 644801002099 putative CheW interface [polypeptide binding]; other site 644801002100 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644801002101 PAS fold; Region: PAS; pfam00989 644801002102 PAS domain; Region: PAS_8; pfam13188 644801002103 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 644801002104 Histidine kinase; Region: HisKA_3; pfam07730 644801002105 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 644801002106 ATP binding site [chemical binding]; other site 644801002107 G-X-G motif; other site 644801002108 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644801002109 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 644801002110 active site 644801002111 phosphorylation site [posttranslational modification] 644801002112 intermolecular recognition site; other site 644801002113 dimerization interface [polypeptide binding]; other site 644801002114 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 644801002115 DNA binding residues [nucleotide binding] 644801002116 dimerization interface [polypeptide binding]; other site 644801002117 PAS fold; Region: PAS_4; pfam08448 644801002118 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 644801002119 PAS domain; Region: PAS_9; pfam13426 644801002120 putative active site [active] 644801002121 heme pocket [chemical binding]; other site 644801002122 PAS fold; Region: PAS_4; pfam08448 644801002123 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801002124 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801002125 metal binding site [ion binding]; metal-binding site 644801002126 active site 644801002127 I-site; other site 644801002128 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 644801002129 dimer interface [polypeptide binding]; other site 644801002130 substrate binding site [chemical binding]; other site 644801002131 metal binding sites [ion binding]; metal-binding site 644801002132 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 644801002133 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 644801002134 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 644801002135 putative active site [active] 644801002136 putative metal binding site [ion binding]; other site 644801002137 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 644801002138 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 644801002139 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 644801002140 ethanolamine permease; Region: 2A0305; TIGR00908 644801002141 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 644801002142 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 644801002143 NAD(P) binding site [chemical binding]; other site 644801002144 catalytic residues [active] 644801002145 putative alcohol dehydrogenase; Provisional; Region: PRK09860 644801002146 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 644801002147 dimer interface [polypeptide binding]; other site 644801002148 active site 644801002149 metal binding site [ion binding]; metal-binding site 644801002150 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 644801002151 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644801002152 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644801002153 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644801002154 aromatic acid decarboxylase; Validated; Region: PRK05920 644801002155 Flavoprotein; Region: Flavoprotein; pfam02441 644801002156 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 644801002157 FtsH Extracellular; Region: FtsH_ext; pfam06480 644801002158 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 644801002159 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 644801002160 Walker A motif; other site 644801002161 ATP binding site [chemical binding]; other site 644801002162 Walker B motif; other site 644801002163 arginine finger; other site 644801002164 Peptidase family M41; Region: Peptidase_M41; pfam01434 644801002165 epoxyqueuosine reductase; Region: TIGR00276 644801002166 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 644801002167 putative carbohydrate kinase; Provisional; Region: PRK10565 644801002168 Uncharacterized conserved protein [Function unknown]; Region: COG0062 644801002169 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 644801002170 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 644801002171 AMIN domain; Region: AMIN; pfam11741 644801002172 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 644801002173 active site 644801002174 metal binding site [ion binding]; metal-binding site 644801002175 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644801002176 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 644801002177 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 644801002178 ATP binding site [chemical binding]; other site 644801002179 Mg2+ binding site [ion binding]; other site 644801002180 G-X-G motif; other site 644801002181 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 644801002182 ATP binding site [chemical binding]; other site 644801002183 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 644801002184 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 644801002185 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 644801002186 bacterial Hfq-like; Region: Hfq; cd01716 644801002187 hexamer interface [polypeptide binding]; other site 644801002188 Sm1 motif; other site 644801002189 RNA binding site [nucleotide binding]; other site 644801002190 Sm2 motif; other site 644801002191 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 644801002192 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 644801002193 HflX GTPase family; Region: HflX; cd01878 644801002194 G1 box; other site 644801002195 GTP/Mg2+ binding site [chemical binding]; other site 644801002196 Switch I region; other site 644801002197 G2 box; other site 644801002198 G3 box; other site 644801002199 Switch II region; other site 644801002200 G4 box; other site 644801002201 G5 box; other site 644801002202 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 644801002203 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 644801002204 HflK protein; Region: hflK; TIGR01933 644801002205 FtsH protease regulator HflC; Provisional; Region: PRK11029 644801002206 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 644801002207 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 644801002208 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 644801002209 dimer interface [polypeptide binding]; other site 644801002210 motif 1; other site 644801002211 active site 644801002212 motif 2; other site 644801002213 motif 3; other site 644801002214 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 644801002215 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 644801002216 GDP-binding site [chemical binding]; other site 644801002217 ACT binding site; other site 644801002218 IMP binding site; other site 644801002219 ribonuclease R; Region: RNase_R; TIGR02063 644801002220 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 644801002221 RNB domain; Region: RNB; pfam00773 644801002222 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 644801002223 RNA binding site [nucleotide binding]; other site 644801002224 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 644801002225 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 644801002226 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 644801002227 PAS fold; Region: PAS_4; pfam08448 644801002228 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 644801002229 putative active site [active] 644801002230 heme pocket [chemical binding]; other site 644801002231 PAS domain; Region: PAS_9; pfam13426 644801002232 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 644801002233 dimer interface [polypeptide binding]; other site 644801002234 phosphorylation site [posttranslational modification] 644801002235 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 644801002236 ATP binding site [chemical binding]; other site 644801002237 Mg2+ binding site [ion binding]; other site 644801002238 G-X-G motif; other site 644801002239 Response regulator receiver domain; Region: Response_reg; pfam00072 644801002240 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 644801002241 active site 644801002242 phosphorylation site [posttranslational modification] 644801002243 intermolecular recognition site; other site 644801002244 dimerization interface [polypeptide binding]; other site 644801002245 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 644801002246 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 644801002247 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 644801002248 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 644801002249 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 644801002250 replicative DNA helicase; Provisional; Region: PRK05748 644801002251 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 644801002252 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 644801002253 Walker A motif; other site 644801002254 ATP binding site [chemical binding]; other site 644801002255 Walker B motif; other site 644801002256 DNA binding loops [nucleotide binding] 644801002257 alanine racemase; Reviewed; Region: alr; PRK00053 644801002258 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 644801002259 active site 644801002260 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644801002261 substrate binding site [chemical binding]; other site 644801002262 catalytic residues [active] 644801002263 dimer interface [polypeptide binding]; other site 644801002264 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644801002265 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644801002266 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 644801002267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801002268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801002269 metal binding site [ion binding]; metal-binding site 644801002270 active site 644801002271 I-site; other site 644801002272 hypothetical protein; Provisional; Region: PRK01254 644801002273 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 644801002274 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 644801002275 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801002276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801002277 dimer interface [polypeptide binding]; other site 644801002278 putative CheW interface [polypeptide binding]; other site 644801002279 Response regulator receiver domain; Region: Response_reg; pfam00072 644801002280 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 644801002281 active site 644801002282 phosphorylation site [posttranslational modification] 644801002283 intermolecular recognition site; other site 644801002284 dimerization interface [polypeptide binding]; other site 644801002285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801002286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801002287 metal binding site [ion binding]; metal-binding site 644801002288 active site 644801002289 I-site; other site 644801002290 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 644801002291 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801002292 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 644801002293 active site 644801002294 phosphorylation site [posttranslational modification] 644801002295 intermolecular recognition site; other site 644801002296 dimerization interface [polypeptide binding]; other site 644801002297 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 644801002298 Walker A motif; other site 644801002299 ATP binding site [chemical binding]; other site 644801002300 Walker B motif; other site 644801002301 arginine finger; other site 644801002302 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801002303 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 644801002304 dimer interface [polypeptide binding]; other site 644801002305 phosphorylation site [posttranslational modification] 644801002306 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 644801002307 ATP binding site [chemical binding]; other site 644801002308 Mg2+ binding site [ion binding]; other site 644801002309 G-X-G motif; other site 644801002310 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 644801002311 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 644801002312 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 644801002313 RNA binding surface [nucleotide binding]; other site 644801002314 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 644801002315 active site 644801002316 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 644801002317 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 644801002318 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 644801002319 Clp amino terminal domain; Region: Clp_N; pfam02861 644801002320 Clp amino terminal domain; Region: Clp_N; pfam02861 644801002321 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 644801002322 Walker A motif; other site 644801002323 ATP binding site [chemical binding]; other site 644801002324 Walker B motif; other site 644801002325 arginine finger; other site 644801002326 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 644801002327 Walker A motif; other site 644801002328 ATP binding site [chemical binding]; other site 644801002329 Walker B motif; other site 644801002330 arginine finger; other site 644801002331 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 644801002332 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 644801002333 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 644801002334 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 644801002335 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 644801002336 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 644801002337 dimerization interface [polypeptide binding]; other site 644801002338 active site 644801002339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 644801002340 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 644801002341 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 644801002342 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 644801002343 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 644801002344 active site 644801002345 HIGH motif; other site 644801002346 dimer interface [polypeptide binding]; other site 644801002347 KMSKS motif; other site 644801002348 Predicted ATPase [General function prediction only]; Region: COG1485 644801002349 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 644801002350 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 644801002351 conserved cys residue [active] 644801002352 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801002353 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 644801002354 Active_site [active] 644801002355 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 644801002356 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 644801002357 amidase catalytic site [active] 644801002358 Zn binding residues [ion binding]; other site 644801002359 substrate binding site [chemical binding]; other site 644801002360 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 644801002361 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 644801002362 dimerization interface [polypeptide binding]; other site 644801002363 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801002364 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801002365 dimer interface [polypeptide binding]; other site 644801002366 putative CheW interface [polypeptide binding]; other site 644801002367 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 644801002368 active site 644801002369 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 644801002370 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 644801002371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801002372 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 644801002373 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 644801002374 DNA binding site [nucleotide binding] 644801002375 active site 644801002376 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 644801002377 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 644801002378 ATP binding site [chemical binding]; other site 644801002379 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644801002380 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644801002381 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644801002382 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801002383 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 644801002384 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 644801002385 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 644801002386 heme binding site [chemical binding]; other site 644801002387 ferroxidase pore; other site 644801002388 ferroxidase diiron center [ion binding]; other site 644801002389 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 644801002390 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 644801002391 dimerization interface [polypeptide binding]; other site 644801002392 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801002393 dimer interface [polypeptide binding]; other site 644801002394 putative CheW interface [polypeptide binding]; other site 644801002395 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 644801002396 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 644801002397 DNA binding residues [nucleotide binding] 644801002398 dimer interface [polypeptide binding]; other site 644801002399 copper binding site [ion binding]; other site 644801002400 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 644801002401 metal-binding site [ion binding] 644801002402 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 644801002403 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 644801002404 metal-binding site [ion binding] 644801002405 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644801002406 Soluble P-type ATPase [General function prediction only]; Region: COG4087 644801002407 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 644801002408 metal-binding site [ion binding] 644801002409 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 644801002410 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801002411 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 644801002412 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 644801002413 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 644801002414 putative substrate translocation pore; other site 644801002415 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 644801002416 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 644801002417 active site 644801002418 purine riboside binding site [chemical binding]; other site 644801002419 Uncharacterized conserved protein [Function unknown]; Region: COG1739 644801002420 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 644801002421 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 644801002422 dimerization interface [polypeptide binding]; other site 644801002423 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 644801002424 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 644801002425 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 644801002426 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 644801002427 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 644801002428 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 644801002429 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801002430 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 644801002431 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 644801002432 active site 644801002433 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 644801002434 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644801002435 putative substrate translocation pore; other site 644801002436 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 644801002437 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 644801002438 conserved cys residue [active] 644801002439 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801002440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801002441 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644801002442 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 644801002443 FMN binding site [chemical binding]; other site 644801002444 active site 644801002445 substrate binding site [chemical binding]; other site 644801002446 catalytic residue [active] 644801002447 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 644801002448 dimerization interface [polypeptide binding]; other site 644801002449 putative DNA binding site [nucleotide binding]; other site 644801002450 putative Zn2+ binding site [ion binding]; other site 644801002451 Helix-turn-helix domain; Region: HTH_18; pfam12833 644801002452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801002453 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 644801002454 Uncharacterized conserved protein [Function unknown]; Region: COG2128 644801002455 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_1; cd08352 644801002456 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801002457 putative metal binding site [ion binding]; other site 644801002458 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 644801002459 S-adenosylmethionine binding site [chemical binding]; other site 644801002460 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 644801002461 hydrophobic ligand binding site; other site 644801002462 EamA-like transporter family; Region: EamA; cl17759 644801002463 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 644801002464 EamA-like transporter family; Region: EamA; pfam00892 644801002465 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 644801002466 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 644801002467 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 644801002468 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801002469 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801002470 metal binding site [ion binding]; metal-binding site 644801002471 active site 644801002472 I-site; other site 644801002473 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 644801002474 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644801002475 substrate binding pocket [chemical binding]; other site 644801002476 membrane-bound complex binding site; other site 644801002477 hinge residues; other site 644801002478 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801002479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801002480 metal binding site [ion binding]; metal-binding site 644801002481 active site 644801002482 I-site; other site 644801002483 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 644801002484 putative metal binding site [ion binding]; other site 644801002485 Uncharacterized conserved protein [Function unknown]; Region: COG1432 644801002486 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 644801002487 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 644801002488 DNA-binding site [nucleotide binding]; DNA binding site 644801002489 RNA-binding motif; other site 644801002490 Predicted membrane protein [Function unknown]; Region: COG3326 644801002491 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 644801002492 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 644801002493 PhnA protein; Region: PhnA; pfam03831 644801002494 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 644801002495 Cytochrome c; Region: Cytochrom_C; cl11414 644801002496 Cytochrome c; Region: Cytochrom_C; cl11414 644801002497 cytosine deaminase; Provisional; Region: PRK09230 644801002498 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 644801002499 active site 644801002500 cytosine permease; Provisional; Region: codB; PRK11017 644801002501 Na binding site [ion binding]; other site 644801002502 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 644801002503 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 644801002504 tetramer interface [polypeptide binding]; other site 644801002505 heme binding pocket [chemical binding]; other site 644801002506 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 644801002507 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 644801002508 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 644801002509 cyanate hydratase; Validated; Region: PRK02866 644801002510 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 644801002511 oligomer interface [polypeptide binding]; other site 644801002512 active site 644801002513 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 644801002514 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 644801002515 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 644801002516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801002517 homodimer interface [polypeptide binding]; other site 644801002518 catalytic residue [active] 644801002519 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_a; cd00913 644801002520 aromatic arch; other site 644801002521 DCoH dimer interaction site [polypeptide binding]; other site 644801002522 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 644801002523 DCoH tetramer interaction site [polypeptide binding]; other site 644801002524 substrate binding site [chemical binding]; other site 644801002525 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 644801002526 cofactor binding site; other site 644801002527 metal binding site [ion binding]; metal-binding site 644801002528 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 644801002529 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644801002530 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 644801002531 putative active site [active] 644801002532 heme pocket [chemical binding]; other site 644801002533 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 644801002534 Walker A motif; other site 644801002535 ATP binding site [chemical binding]; other site 644801002536 Walker B motif; other site 644801002537 arginine finger; other site 644801002538 CheB methylesterase; Region: CheB_methylest; pfam01339 644801002539 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 644801002540 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 644801002541 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 644801002542 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 644801002543 PAS domain; Region: PAS_9; pfam13426 644801002544 putative active site [active] 644801002545 heme pocket [chemical binding]; other site 644801002546 Tat binding protein 1(TBP-1)-interacting protein (TBPIP); Region: TBPIP; pfam07106 644801002547 PAS domain; Region: PAS_10; pfam13596 644801002548 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 644801002549 putative active site [active] 644801002550 heme pocket [chemical binding]; other site 644801002551 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644801002552 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 644801002553 putative active site [active] 644801002554 heme pocket [chemical binding]; other site 644801002555 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 644801002556 dimer interface [polypeptide binding]; other site 644801002557 phosphorylation site [posttranslational modification] 644801002558 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 644801002559 ATP binding site [chemical binding]; other site 644801002560 Mg2+ binding site [ion binding]; other site 644801002561 G-X-G motif; other site 644801002562 Response regulator receiver domain; Region: Response_reg; pfam00072 644801002563 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 644801002564 active site 644801002565 phosphorylation site [posttranslational modification] 644801002566 intermolecular recognition site; other site 644801002567 dimerization interface [polypeptide binding]; other site 644801002568 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 644801002569 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 644801002570 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 644801002571 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 644801002572 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644801002573 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801002574 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 644801002575 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801002576 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 644801002577 Uncharacterized conserved protein [Function unknown]; Region: COG3189 644801002578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 644801002579 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801002580 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801002581 active site 644801002582 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 644801002583 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 644801002584 4Fe-4S binding domain; Region: Fer4_5; pfam12801 644801002585 nitrous-oxide reductase; Validated; Region: PRK02888 644801002586 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 644801002587 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 644801002588 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 644801002589 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 644801002590 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 644801002591 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801002592 Walker A/P-loop; other site 644801002593 ATP binding site [chemical binding]; other site 644801002594 Q-loop/lid; other site 644801002595 ABC transporter signature motif; other site 644801002596 Walker B; other site 644801002597 D-loop; other site 644801002598 H-loop/switch region; other site 644801002599 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 644801002600 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 644801002601 NosL; Region: NosL; pfam05573 644801002602 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 644801002603 NnrS protein; Region: NnrS; pfam05940 644801002604 short chain dehydrogenase; Provisional; Region: PRK06500 644801002605 classical (c) SDRs; Region: SDR_c; cd05233 644801002606 NAD(P) binding site [chemical binding]; other site 644801002607 active site 644801002608 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 644801002609 HPP family; Region: HPP; pfam04982 644801002610 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 644801002611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801002612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801002613 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 644801002614 dimerization interface [polypeptide binding]; other site 644801002615 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 644801002616 Type II transport protein GspH; Region: GspH; pfam12019 644801002617 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 644801002618 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 644801002619 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 644801002620 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 644801002621 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 644801002622 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 644801002623 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801002624 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 644801002625 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 644801002626 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 644801002627 active site 644801002628 SAM binding site [chemical binding]; other site 644801002629 homodimer interface [polypeptide binding]; other site 644801002630 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 644801002631 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 644801002632 FeS/SAM binding site; other site 644801002633 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 644801002634 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 644801002635 Subunit I/III interface [polypeptide binding]; other site 644801002636 MoxR-like ATPases [General function prediction only]; Region: COG0714 644801002637 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 644801002638 Walker A motif; other site 644801002639 ATP binding site [chemical binding]; other site 644801002640 Walker B motif; other site 644801002641 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 644801002642 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 644801002643 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801002644 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 644801002645 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 644801002646 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 644801002647 Ethylbenzene dehydrogenase; Region: EB_dh; smart00887 644801002648 putative ligand binding site [chemical binding]; other site 644801002649 Cytochrome c; Region: Cytochrom_C; cl11414 644801002650 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 644801002651 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801002652 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 644801002653 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801002654 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801002655 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801002656 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 644801002657 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801002658 Cytochrome c; Region: Cytochrom_C; pfam00034 644801002659 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 644801002660 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 644801002661 Low-spin heme binding site [chemical binding]; other site 644801002662 D-pathway; other site 644801002663 K-pathway; other site 644801002664 Binuclear center (active site) [active] 644801002665 Putative proton exit pathway; other site 644801002666 Putative water exit pathway; other site 644801002667 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 644801002668 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 644801002669 metal ion-dependent adhesion site (MIDAS); other site 644801002670 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 644801002671 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 644801002672 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 644801002673 ligand binding site [chemical binding]; other site 644801002674 flexible hinge region; other site 644801002675 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 644801002676 putative switch regulator; other site 644801002677 non-specific DNA interactions [nucleotide binding]; other site 644801002678 DNA binding site [nucleotide binding] 644801002679 sequence specific DNA binding site [nucleotide binding]; other site 644801002680 putative cAMP binding site [chemical binding]; other site 644801002681 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 644801002682 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 644801002683 Hemerythrin-like domain; Region: Hr-like; cd12108 644801002684 Fe binding site [ion binding]; other site 644801002685 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 644801002686 GAF domain; Region: GAF; pfam01590 644801002687 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 644801002688 Walker A motif; other site 644801002689 ATP binding site [chemical binding]; other site 644801002690 Walker B motif; other site 644801002691 arginine finger; other site 644801002692 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 644801002693 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 644801002694 Peptidase family U32; Region: Peptidase_U32; pfam01136 644801002695 putative protease; Provisional; Region: PRK15447 644801002696 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 644801002697 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 644801002698 DGC domain; Region: DGC; pfam08859 644801002699 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 644801002700 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 644801002701 ligand binding site [chemical binding]; other site 644801002702 flexible hinge region; other site 644801002703 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 644801002704 putative switch regulator; other site 644801002705 non-specific DNA interactions [nucleotide binding]; other site 644801002706 DNA binding site [nucleotide binding] 644801002707 sequence specific DNA binding site [nucleotide binding]; other site 644801002708 putative cAMP binding site [chemical binding]; other site 644801002709 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 644801002710 ATP cone domain; Region: ATP-cone; pfam03477 644801002711 Class III ribonucleotide reductase; Region: RNR_III; cd01675 644801002712 effector binding site; other site 644801002713 active site 644801002714 Zn binding site [ion binding]; other site 644801002715 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 644801002716 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 644801002717 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 644801002718 FeS/SAM binding site; other site 644801002719 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 644801002720 4Fe-4S binding domain; Region: Fer4_5; pfam12801 644801002721 Iron permease FTR1 family; Region: FTR1; cl00475 644801002722 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 644801002723 Fe2+ transport protein; Region: Iron_transport; pfam10634 644801002724 putative transporter; Provisional; Region: PRK10504 644801002725 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 644801002726 putative substrate translocation pore; other site 644801002727 Pathogenicity factor; Region: AvrE; pfam11725 644801002728 phosphogluconate dehydratase; Validated; Region: PRK09054 644801002729 6-phosphogluconate dehydratase; Region: edd; TIGR01196 644801002730 glucokinase; Provisional; Region: glk; PRK00292 644801002731 glucokinase, proteobacterial type; Region: glk; TIGR00749 644801002732 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 644801002733 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 644801002734 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 644801002735 putative active site [active] 644801002736 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 644801002737 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 644801002738 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 644801002739 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 644801002740 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 644801002741 putative active site [active] 644801002742 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 644801002743 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 644801002744 active site 644801002745 intersubunit interface [polypeptide binding]; other site 644801002746 catalytic residue [active] 644801002747 betaine aldehyde dehydrogenase; Region: PLN02467 644801002748 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 644801002749 tetrameric interface [polypeptide binding]; other site 644801002750 activator binding site; other site 644801002751 NADP binding site [chemical binding]; other site 644801002752 substrate binding site [chemical binding]; other site 644801002753 catalytic residues [active] 644801002754 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 644801002755 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 644801002756 active site 644801002757 catalytic tetrad [active] 644801002758 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 644801002759 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 644801002760 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 644801002761 trimer interface; other site 644801002762 sugar binding site [chemical binding]; other site 644801002763 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 644801002764 active site 644801002765 Ca binding site [ion binding]; other site 644801002766 catalytic site [active] 644801002767 Domain of unknown function (DUF1921); Region: DUF1921; pfam09081 644801002768 Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from...; Region: CBM20_alpha_MTH; cd05810 644801002769 starch-binding site 2 [chemical binding]; other site 644801002770 starch-binding site 1 [chemical binding]; other site 644801002771 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 644801002772 active site 644801002773 substrate binding site [chemical binding]; other site 644801002774 ATP binding site [chemical binding]; other site 644801002775 alpha-amylase; Reviewed; Region: malS; PRK09505 644801002776 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 644801002777 active site 644801002778 catalytic site [active] 644801002779 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 644801002780 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 644801002781 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 644801002782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801002783 dimer interface [polypeptide binding]; other site 644801002784 conserved gate region; other site 644801002785 putative PBP binding loops; other site 644801002786 ABC-ATPase subunit interface; other site 644801002787 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 644801002788 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801002789 dimer interface [polypeptide binding]; other site 644801002790 conserved gate region; other site 644801002791 putative PBP binding loops; other site 644801002792 ABC-ATPase subunit interface; other site 644801002793 transcriptional regulator MalT; Provisional; Region: PRK04841 644801002794 AAA ATPase domain; Region: AAA_16; pfam13191 644801002795 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 644801002796 DNA binding residues [nucleotide binding] 644801002797 dimerization interface [polypeptide binding]; other site 644801002798 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 644801002799 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 644801002800 C-terminal domain interface [polypeptide binding]; other site 644801002801 GSH binding site (G-site) [chemical binding]; other site 644801002802 dimer interface [polypeptide binding]; other site 644801002803 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 644801002804 dimer interface [polypeptide binding]; other site 644801002805 N-terminal domain interface [polypeptide binding]; other site 644801002806 substrate binding pocket (H-site) [chemical binding]; other site 644801002807 maltose O-acetyltransferase; Provisional; Region: PRK10092 644801002808 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 644801002809 active site 644801002810 substrate binding site [chemical binding]; other site 644801002811 trimer interface [polypeptide binding]; other site 644801002812 CoA binding site [chemical binding]; other site 644801002813 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 644801002814 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 644801002815 active site 644801002816 catalytic site [active] 644801002817 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 644801002818 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 644801002819 Walker A/P-loop; other site 644801002820 ATP binding site [chemical binding]; other site 644801002821 Q-loop/lid; other site 644801002822 ABC transporter signature motif; other site 644801002823 Walker B; other site 644801002824 D-loop; other site 644801002825 H-loop/switch region; other site 644801002826 TOBE domain; Region: TOBE_2; pfam08402 644801002827 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 644801002828 non-specific DNA binding site [nucleotide binding]; other site 644801002829 salt bridge; other site 644801002830 sequence-specific DNA binding site [nucleotide binding]; other site 644801002831 HipA N-terminal domain; Region: Couple_hipA; pfam13657 644801002832 HipA-like N-terminal domain; Region: HipA_N; pfam07805 644801002833 HipA-like C-terminal domain; Region: HipA_C; pfam07804 644801002834 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644801002835 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 644801002836 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 644801002837 S-adenosylmethionine binding site [chemical binding]; other site 644801002838 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 644801002839 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 644801002840 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 644801002841 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 644801002842 Mrr N-terminal domain; Region: Mrr_N; pfam14338 644801002843 Restriction endonuclease; Region: Mrr_cat; pfam04471 644801002844 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801002845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801002846 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 644801002847 dimerization interface [polypeptide binding]; other site 644801002848 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 644801002849 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 644801002850 putative NAD(P) binding site [chemical binding]; other site 644801002851 putative regulator PrlF; Provisional; Region: PRK09974 644801002852 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 644801002853 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 644801002854 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 644801002855 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 644801002856 conserved cys residue [active] 644801002857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801002858 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 644801002859 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801002860 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 644801002861 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 644801002862 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 644801002863 substrate binding site [chemical binding]; other site 644801002864 catalytic Zn binding site [ion binding]; other site 644801002865 NAD binding site [chemical binding]; other site 644801002866 structural Zn binding site [ion binding]; other site 644801002867 dimer interface [polypeptide binding]; other site 644801002868 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 644801002869 putative homodimer interface [polypeptide binding]; other site 644801002870 putative homotetramer interface [polypeptide binding]; other site 644801002871 putative metal binding site [ion binding]; other site 644801002872 putative homodimer-homodimer interface [polypeptide binding]; other site 644801002873 putative allosteric switch controlling residues; other site 644801002874 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 644801002875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801002876 NAD(P) binding site [chemical binding]; other site 644801002877 active site 644801002878 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801002879 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801002880 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 644801002881 putative effector binding pocket; other site 644801002882 dimerization interface [polypeptide binding]; other site 644801002883 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 644801002884 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 644801002885 NAD binding site [chemical binding]; other site 644801002886 catalytic Zn binding site [ion binding]; other site 644801002887 structural Zn binding site [ion binding]; other site 644801002888 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 644801002889 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801002890 Walker A/P-loop; other site 644801002891 ATP binding site [chemical binding]; other site 644801002892 Q-loop/lid; other site 644801002893 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 644801002894 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801002895 AAA domain; Region: AAA_21; pfam13304 644801002896 Walker A/P-loop; other site 644801002897 ATP binding site [chemical binding]; other site 644801002898 Q-loop/lid; other site 644801002899 ABC transporter signature motif; other site 644801002900 Walker B; other site 644801002901 D-loop; other site 644801002902 H-loop/switch region; other site 644801002903 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 644801002904 dimerization interface [polypeptide binding]; other site 644801002905 putative DNA binding site [nucleotide binding]; other site 644801002906 putative Zn2+ binding site [ion binding]; other site 644801002907 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 644801002908 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 644801002909 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644801002910 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 644801002911 FMN binding site [chemical binding]; other site 644801002912 active site 644801002913 substrate binding site [chemical binding]; other site 644801002914 catalytic residue [active] 644801002915 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 644801002916 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 644801002917 NAD(P) binding site [chemical binding]; other site 644801002918 catalytic residues [active] 644801002919 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 644801002920 active site 644801002921 catalytic site [active] 644801002922 substrate binding site [chemical binding]; other site 644801002923 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 644801002924 tellurite resistance protein terB; Region: terB; cd07176 644801002925 putative metal binding site [ion binding]; other site 644801002926 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 644801002927 DEAD-like helicases superfamily; Region: DEXDc; smart00487 644801002928 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 644801002929 ATP binding site [chemical binding]; other site 644801002930 putative Mg++ binding site [ion binding]; other site 644801002931 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 644801002932 nucleotide binding region [chemical binding]; other site 644801002933 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 644801002934 active site 644801002935 catalytic residues [active] 644801002936 DNA binding site [nucleotide binding] 644801002937 Int/Topo IB signature motif; other site 644801002938 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 644801002939 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 644801002940 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644801002941 TPR motif; other site 644801002942 binding surface 644801002943 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 644801002944 EamA-like transporter family; Region: EamA; pfam00892 644801002945 EamA-like transporter family; Region: EamA; pfam00892 644801002946 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 644801002947 EamA-like transporter family; Region: EamA; pfam00892 644801002948 EamA-like transporter family; Region: EamA; pfam00892 644801002949 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801002950 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 644801002951 putative DNA binding site [nucleotide binding]; other site 644801002952 putative Zn2+ binding site [ion binding]; other site 644801002953 AsnC family; Region: AsnC_trans_reg; pfam01037 644801002954 Cupin; Region: Cupin_6; pfam12852 644801002955 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801002956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801002957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801002958 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 644801002959 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 644801002960 GSH binding site [chemical binding]; other site 644801002961 catalytic residues [active] 644801002962 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 644801002963 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801002964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801002965 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 644801002966 putative effector binding pocket; other site 644801002967 dimerization interface [polypeptide binding]; other site 644801002968 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 644801002969 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 644801002970 putative NAD(P) binding site [chemical binding]; other site 644801002971 dimer interface [polypeptide binding]; other site 644801002972 Major royal jelly protein; Region: MRJP; pfam03022 644801002973 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 644801002974 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 644801002975 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 644801002976 dimer interface [polypeptide binding]; other site 644801002977 FMN binding site [chemical binding]; other site 644801002978 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 644801002979 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 644801002980 NADP binding site [chemical binding]; other site 644801002981 dimer interface [polypeptide binding]; other site 644801002982 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801002983 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801002984 AAA domain; Region: AAA_21; pfam13304 644801002985 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 644801002986 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 644801002987 putative homodimer interface [polypeptide binding]; other site 644801002988 putative homotetramer interface [polypeptide binding]; other site 644801002989 putative metal binding site [ion binding]; other site 644801002990 putative homodimer-homodimer interface [polypeptide binding]; other site 644801002991 putative allosteric switch controlling residues; other site 644801002992 High-affinity nickel-transport protein; Region: NicO; cl00964 644801002993 High-affinity nickel-transport protein; Region: NicO; cl00964 644801002994 Predicted membrane protein [Function unknown]; Region: COG1238 644801002995 conjugal transfer protein TrbP; Provisional; Region: PRK13882 644801002996 TraX protein; Region: TraX; pfam05857 644801002997 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 644801002998 active site residue [active] 644801002999 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 644801003000 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 644801003001 Chromate transporter; Region: Chromate_transp; pfam02417 644801003002 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 644801003003 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 644801003004 active site 644801003005 DNA binding site [nucleotide binding] 644801003006 Int/Topo IB signature motif; other site 644801003007 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 644801003008 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 644801003009 active site 644801003010 DNA binding site [nucleotide binding] 644801003011 Int/Topo IB signature motif; other site 644801003012 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 644801003013 FAD binding domain; Region: FAD_binding_4; pfam01565 644801003014 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 644801003015 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644801003016 Cysteine-rich domain; Region: CCG; pfam02754 644801003017 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 644801003018 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 644801003019 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 644801003020 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 644801003021 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 644801003022 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644801003023 Cysteine-rich domain; Region: CCG; pfam02754 644801003024 Cysteine-rich domain; Region: CCG; pfam02754 644801003025 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 644801003026 L-lactate permease; Region: Lactate_perm; cl00701 644801003027 Transcriptional regulators [Transcription]; Region: FadR; COG2186 644801003028 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801003029 DNA-binding site [nucleotide binding]; DNA binding site 644801003030 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 644801003031 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 644801003032 SmpB-tmRNA interface; other site 644801003033 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 644801003034 putative coenzyme Q binding site [chemical binding]; other site 644801003035 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 644801003036 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 644801003037 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 644801003038 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 644801003039 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 644801003040 metal binding site 2 [ion binding]; metal-binding site 644801003041 putative DNA binding helix; other site 644801003042 metal binding site 1 [ion binding]; metal-binding site 644801003043 dimer interface [polypeptide binding]; other site 644801003044 structural Zn2+ binding site [ion binding]; other site 644801003045 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 644801003046 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 644801003047 Walker A/P-loop; other site 644801003048 ATP binding site [chemical binding]; other site 644801003049 Q-loop/lid; other site 644801003050 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 644801003051 ABC transporter signature motif; other site 644801003052 Walker B; other site 644801003053 D-loop; other site 644801003054 H-loop/switch region; other site 644801003055 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 644801003056 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 644801003057 dimer interface [polypeptide binding]; other site 644801003058 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 644801003059 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 644801003060 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 644801003061 nucleotide binding site [chemical binding]; other site 644801003062 NEF interaction site [polypeptide binding]; other site 644801003063 SBD interface [polypeptide binding]; other site 644801003064 chaperone protein DnaJ; Provisional; Region: PRK10767 644801003065 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 644801003066 HSP70 interaction site [polypeptide binding]; other site 644801003067 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 644801003068 substrate binding site [polypeptide binding]; other site 644801003069 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 644801003070 Zn binding sites [ion binding]; other site 644801003071 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 644801003072 dimer interface [polypeptide binding]; other site 644801003073 dihydrodipicolinate reductase; Provisional; Region: PRK00048 644801003074 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 644801003075 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 644801003076 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 644801003077 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 644801003078 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 644801003079 catalytic site [active] 644801003080 subunit interface [polypeptide binding]; other site 644801003081 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 644801003082 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644801003083 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 644801003084 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 644801003085 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644801003086 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644801003087 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 644801003088 IMP binding site; other site 644801003089 dimer interface [polypeptide binding]; other site 644801003090 interdomain contacts; other site 644801003091 partial ornithine binding site; other site 644801003092 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 644801003093 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 644801003094 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 644801003095 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 644801003096 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 644801003097 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 644801003098 Walker A motif; other site 644801003099 ATP binding site [chemical binding]; other site 644801003100 Walker B motif; other site 644801003101 arginine finger; other site 644801003102 Peptidase family M41; Region: Peptidase_M41; pfam01434 644801003103 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 644801003104 dihydropteroate synthase; Region: DHPS; TIGR01496 644801003105 substrate binding pocket [chemical binding]; other site 644801003106 dimer interface [polypeptide binding]; other site 644801003107 inhibitor binding site; inhibition site 644801003108 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 644801003109 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 644801003110 active site 644801003111 substrate binding site [chemical binding]; other site 644801003112 metal binding site [ion binding]; metal-binding site 644801003113 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 644801003114 triosephosphate isomerase; Provisional; Region: PRK14567 644801003115 substrate binding site [chemical binding]; other site 644801003116 dimer interface [polypeptide binding]; other site 644801003117 catalytic triad [active] 644801003118 ribosome maturation protein RimP; Reviewed; Region: PRK00092 644801003119 Sm and related proteins; Region: Sm_like; cl00259 644801003120 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 644801003121 putative oligomer interface [polypeptide binding]; other site 644801003122 putative RNA binding site [nucleotide binding]; other site 644801003123 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 644801003124 NusA N-terminal domain; Region: NusA_N; pfam08529 644801003125 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 644801003126 RNA binding site [nucleotide binding]; other site 644801003127 homodimer interface [polypeptide binding]; other site 644801003128 NusA-like KH domain; Region: KH_5; pfam13184 644801003129 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 644801003130 G-X-X-G motif; other site 644801003131 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 644801003132 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 644801003133 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 644801003134 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 644801003135 translation initiation factor IF-2; Region: IF-2; TIGR00487 644801003136 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 644801003137 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 644801003138 G1 box; other site 644801003139 putative GEF interaction site [polypeptide binding]; other site 644801003140 GTP/Mg2+ binding site [chemical binding]; other site 644801003141 Switch I region; other site 644801003142 G2 box; other site 644801003143 G3 box; other site 644801003144 Switch II region; other site 644801003145 G4 box; other site 644801003146 G5 box; other site 644801003147 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 644801003148 Translation-initiation factor 2; Region: IF-2; pfam11987 644801003149 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 644801003150 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 644801003151 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 644801003152 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 644801003153 RNA binding site [nucleotide binding]; other site 644801003154 active site 644801003155 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 644801003156 Ribosomal S15 leader; Psest_0984 644801003157 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 644801003158 16S/18S rRNA binding site [nucleotide binding]; other site 644801003159 S13e-L30e interaction site [polypeptide binding]; other site 644801003160 25S rRNA binding site [nucleotide binding]; other site 644801003161 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 644801003162 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 644801003163 RNase E interface [polypeptide binding]; other site 644801003164 trimer interface [polypeptide binding]; other site 644801003165 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 644801003166 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 644801003167 RNase E interface [polypeptide binding]; other site 644801003168 trimer interface [polypeptide binding]; other site 644801003169 active site 644801003170 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 644801003171 putative nucleic acid binding region [nucleotide binding]; other site 644801003172 G-X-X-G motif; other site 644801003173 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 644801003174 RNA binding site [nucleotide binding]; other site 644801003175 domain interface; other site 644801003176 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 644801003177 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 644801003178 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 644801003179 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 644801003180 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 644801003181 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 644801003182 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801003183 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 644801003184 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 644801003185 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 644801003186 putative RNA binding site [nucleotide binding]; other site 644801003187 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 644801003188 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 644801003189 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 644801003190 active site 644801003191 dimer interface [polypeptide binding]; other site 644801003192 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 644801003193 dimer interface [polypeptide binding]; other site 644801003194 active site 644801003195 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 644801003196 tetramerization interface [polypeptide binding]; other site 644801003197 active site 644801003198 pantoate--beta-alanine ligase; Region: panC; TIGR00018 644801003199 Pantoate-beta-alanine ligase; Region: PanC; cd00560 644801003200 active site 644801003201 ATP-binding site [chemical binding]; other site 644801003202 pantoate-binding site; other site 644801003203 HXXH motif; other site 644801003204 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 644801003205 oligomerization interface [polypeptide binding]; other site 644801003206 active site 644801003207 metal binding site [ion binding]; metal-binding site 644801003208 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 644801003209 catalytic center binding site [active] 644801003210 ATP binding site [chemical binding]; other site 644801003211 poly(A) polymerase; Region: pcnB; TIGR01942 644801003212 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 644801003213 active site 644801003214 NTP binding site [chemical binding]; other site 644801003215 metal binding triad [ion binding]; metal-binding site 644801003216 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 644801003217 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 644801003218 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801003219 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 644801003220 active site 644801003221 phosphorylation site [posttranslational modification] 644801003222 intermolecular recognition site; other site 644801003223 dimerization interface [polypeptide binding]; other site 644801003224 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 644801003225 Walker A motif; other site 644801003226 ATP binding site [chemical binding]; other site 644801003227 Walker B motif; other site 644801003228 arginine finger; other site 644801003229 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 644801003230 Na binding site [ion binding]; other site 644801003231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801003232 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 644801003233 dimer interface [polypeptide binding]; other site 644801003234 phosphorylation site [posttranslational modification] 644801003235 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 644801003236 ATP binding site [chemical binding]; other site 644801003237 Mg2+ binding site [ion binding]; other site 644801003238 G-X-G motif; other site 644801003239 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 644801003240 active site 644801003241 HIGH motif; other site 644801003242 nucleotide binding site [chemical binding]; other site 644801003243 KMSKS motif; other site 644801003244 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 644801003245 hypothetical protein; Provisional; Region: PRK08960 644801003246 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 644801003247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801003248 homodimer interface [polypeptide binding]; other site 644801003249 catalytic residue [active] 644801003250 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 644801003251 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 644801003252 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 644801003253 NADP binding site [chemical binding]; other site 644801003254 active site 644801003255 putative substrate binding site [chemical binding]; other site 644801003256 Predicted permeases [General function prediction only]; Region: COG0679 644801003257 Predicted integral membrane protein [Function unknown]; Region: COG0392 644801003258 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644801003259 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644801003260 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 644801003261 dimer interface [polypeptide binding]; other site 644801003262 phosphorylation site [posttranslational modification] 644801003263 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 644801003264 ATP binding site [chemical binding]; other site 644801003265 Mg2+ binding site [ion binding]; other site 644801003266 G-X-G motif; other site 644801003267 Response regulator receiver domain; Region: Response_reg; pfam00072 644801003268 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 644801003269 active site 644801003270 phosphorylation site [posttranslational modification] 644801003271 intermolecular recognition site; other site 644801003272 dimerization interface [polypeptide binding]; other site 644801003273 Response regulator receiver domain; Region: Response_reg; pfam00072 644801003274 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 644801003275 active site 644801003276 phosphorylation site [posttranslational modification] 644801003277 intermolecular recognition site; other site 644801003278 dimerization interface [polypeptide binding]; other site 644801003279 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 644801003280 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 644801003281 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 644801003282 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 644801003283 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 644801003284 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 644801003285 purine monophosphate binding site [chemical binding]; other site 644801003286 dimer interface [polypeptide binding]; other site 644801003287 putative catalytic residues [active] 644801003288 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 644801003289 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 644801003290 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 644801003291 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 644801003292 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 644801003293 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 644801003294 FMN binding site [chemical binding]; other site 644801003295 active site 644801003296 catalytic residues [active] 644801003297 substrate binding site [chemical binding]; other site 644801003298 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 644801003299 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 644801003300 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 644801003301 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 644801003302 S-adenosylmethionine binding site [chemical binding]; other site 644801003303 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 644801003304 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644801003305 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 644801003306 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 644801003307 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 644801003308 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 644801003309 carboxyltransferase (CT) interaction site; other site 644801003310 biotinylation site [posttranslational modification]; other site 644801003311 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 644801003312 Dehydroquinase class II; Region: DHquinase_II; pfam01220 644801003313 active site 644801003314 trimer interface [polypeptide binding]; other site 644801003315 dimer interface [polypeptide binding]; other site 644801003316 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 644801003317 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 644801003318 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 644801003319 DsbD alpha interface [polypeptide binding]; other site 644801003320 catalytic residues [active] 644801003321 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 644801003322 iron-sulfur cluster [ion binding]; other site 644801003323 [2Fe-2S] cluster binding site [ion binding]; other site 644801003324 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 644801003325 ABC-ATPase subunit interface; other site 644801003326 dimer interface [polypeptide binding]; other site 644801003327 putative PBP binding regions; other site 644801003328 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 644801003329 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 644801003330 Walker A/P-loop; other site 644801003331 ATP binding site [chemical binding]; other site 644801003332 Q-loop/lid; other site 644801003333 ABC transporter signature motif; other site 644801003334 Walker B; other site 644801003335 D-loop; other site 644801003336 H-loop/switch region; other site 644801003337 Protein of unknown function, DUF399; Region: DUF399; cl01139 644801003338 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 644801003339 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 644801003340 ligand binding site [chemical binding]; other site 644801003341 flexible hinge region; other site 644801003342 TfoX C-terminal domain; Region: TfoX_C; pfam04994 644801003343 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 644801003344 S-adenosylmethionine binding site [chemical binding]; other site 644801003345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 644801003346 AAA domain; Region: AAA_33; pfam13671 644801003347 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 644801003348 active site 644801003349 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 644801003350 Transglycosylase; Region: Transgly; pfam00912 644801003351 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 644801003352 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 644801003353 TPR motif; other site 644801003354 binding surface 644801003355 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 644801003356 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 644801003357 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 644801003358 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 644801003359 PYR/PP interface [polypeptide binding]; other site 644801003360 dimer interface [polypeptide binding]; other site 644801003361 TPP binding site [chemical binding]; other site 644801003362 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 644801003363 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 644801003364 TPP-binding site [chemical binding]; other site 644801003365 dimer interface [polypeptide binding]; other site 644801003366 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 644801003367 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 644801003368 putative valine binding site [chemical binding]; other site 644801003369 dimer interface [polypeptide binding]; other site 644801003370 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 644801003371 ketol-acid reductoisomerase; Provisional; Region: PRK05479 644801003372 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 644801003373 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 644801003374 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 644801003375 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 644801003376 TMAO/DMSO reductase; Reviewed; Region: PRK05363 644801003377 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 644801003378 Moco binding site; other site 644801003379 metal coordination site [ion binding]; other site 644801003380 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 644801003381 Paraquat-inducible protein A; Region: PqiA; pfam04403 644801003382 Paraquat-inducible protein A; Region: PqiA; pfam04403 644801003383 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 644801003384 mce related protein; Region: MCE; pfam02470 644801003385 mce related protein; Region: MCE; pfam02470 644801003386 mce related protein; Region: MCE; pfam02470 644801003387 mce related protein; Region: MCE; pfam02470 644801003388 mce related protein; Region: MCE; pfam02470 644801003389 mce related protein; Region: MCE; pfam02470 644801003390 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 644801003391 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 644801003392 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 644801003393 dimer interface [polypeptide binding]; other site 644801003394 active site 644801003395 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644801003396 catalytic residues [active] 644801003397 substrate binding site [chemical binding]; other site 644801003398 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 644801003399 2-isopropylmalate synthase; Validated; Region: PRK00915 644801003400 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 644801003401 active site 644801003402 catalytic residues [active] 644801003403 metal binding site [ion binding]; metal-binding site 644801003404 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 644801003405 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 644801003406 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801003407 Coenzyme A binding pocket [chemical binding]; other site 644801003408 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 644801003409 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 644801003410 active site 644801003411 motif I; other site 644801003412 motif II; other site 644801003413 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 644801003414 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 644801003415 active site 644801003416 homotetramer interface [polypeptide binding]; other site 644801003417 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_cladeA; cd00883 644801003418 active site clefts [active] 644801003419 zinc binding site [ion binding]; other site 644801003420 dimer interface [polypeptide binding]; other site 644801003421 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 644801003422 EamA-like transporter family; Region: EamA; pfam00892 644801003423 outer membrane porin, OprD family; Region: OprD; pfam03573 644801003424 Tannase and feruloyl esterase; Region: Tannase; pfam07519 644801003425 Predicted membrane protein [Function unknown]; Region: COG2259 644801003426 PAS fold; Region: PAS_4; pfam08448 644801003427 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 644801003428 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 644801003429 Walker A motif; other site 644801003430 ATP binding site [chemical binding]; other site 644801003431 Walker B motif; other site 644801003432 arginine finger; other site 644801003433 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801003434 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 644801003435 DctM-like transporters; Region: DctM; pfam06808 644801003436 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 644801003437 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801003438 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 644801003439 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 644801003440 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644801003441 DNA binding residues [nucleotide binding] 644801003442 putative dimer interface [polypeptide binding]; other site 644801003443 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 644801003444 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 644801003445 dimer interface [polypeptide binding]; other site 644801003446 active site 644801003447 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 644801003448 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 644801003449 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 644801003450 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 644801003451 active site 644801003452 catalytic residues [active] 644801003453 metal binding site [ion binding]; metal-binding site 644801003454 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 644801003455 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644801003456 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 644801003457 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 644801003458 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 644801003459 carboxyltransferase (CT) interaction site; other site 644801003460 biotinylation site [posttranslational modification]; other site 644801003461 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 644801003462 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 644801003463 substrate binding site [chemical binding]; other site 644801003464 oxyanion hole (OAH) forming residues; other site 644801003465 trimer interface [polypeptide binding]; other site 644801003466 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 644801003467 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 644801003468 isovaleryl-CoA dehydrogenase; Region: PLN02519 644801003469 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 644801003470 substrate binding site [chemical binding]; other site 644801003471 FAD binding site [chemical binding]; other site 644801003472 catalytic base [active] 644801003473 UV-endonuclease UvdE; Region: UvdE; cl10036 644801003474 AMP-binding domain protein; Validated; Region: PRK08315 644801003475 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644801003476 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 644801003477 acyl-activating enzyme (AAE) consensus motif; other site 644801003478 putative AMP binding site [chemical binding]; other site 644801003479 putative active site [active] 644801003480 putative CoA binding site [chemical binding]; other site 644801003481 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 644801003482 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 644801003483 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 644801003484 outer membrane porin, OprD family; Region: OprD; pfam03573 644801003485 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644801003486 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 644801003487 Walker A/P-loop; other site 644801003488 ATP binding site [chemical binding]; other site 644801003489 Q-loop/lid; other site 644801003490 ABC transporter signature motif; other site 644801003491 Walker B; other site 644801003492 D-loop; other site 644801003493 H-loop/switch region; other site 644801003494 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644801003495 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644801003496 Walker A/P-loop; other site 644801003497 ATP binding site [chemical binding]; other site 644801003498 Q-loop/lid; other site 644801003499 ABC transporter signature motif; other site 644801003500 Walker B; other site 644801003501 D-loop; other site 644801003502 H-loop/switch region; other site 644801003503 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644801003504 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 644801003505 putative ligand binding site [chemical binding]; other site 644801003506 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 644801003507 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644801003508 TM-ABC transporter signature motif; other site 644801003509 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 644801003510 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644801003511 TM-ABC transporter signature motif; other site 644801003512 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 644801003513 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 644801003514 active site 644801003515 catalytic residues [active] 644801003516 DNA binding site [nucleotide binding] 644801003517 Int/Topo IB signature motif; other site 644801003518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801003519 AAA domain; Region: AAA_21; pfam13304 644801003520 Walker A/P-loop; other site 644801003521 ATP binding site [chemical binding]; other site 644801003522 AAA domain; Region: AAA_21; pfam13304 644801003523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801003524 ABC transporter signature motif; other site 644801003525 Walker B; other site 644801003526 D-loop; other site 644801003527 H-loop/switch region; other site 644801003528 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644801003529 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 644801003530 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644801003531 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644801003532 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 644801003533 Methyltransferase domain; Region: Methyltransf_26; pfam13659 644801003534 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 644801003535 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 644801003536 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 644801003537 ATP binding site [chemical binding]; other site 644801003538 putative Mg++ binding site [ion binding]; other site 644801003539 Fic family protein [Function unknown]; Region: COG3177 644801003540 Fic/DOC family; Region: Fic; pfam02661 644801003541 integrase; Provisional; Region: PRK09692 644801003542 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 644801003543 active site 644801003544 Int/Topo IB signature motif; other site 644801003545 GTP-binding protein YchF; Reviewed; Region: PRK09601 644801003546 YchF GTPase; Region: YchF; cd01900 644801003547 G1 box; other site 644801003548 GTP/Mg2+ binding site [chemical binding]; other site 644801003549 Switch I region; other site 644801003550 G2 box; other site 644801003551 Switch II region; other site 644801003552 G3 box; other site 644801003553 G4 box; other site 644801003554 G5 box; other site 644801003555 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 644801003556 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 644801003557 putative active site [active] 644801003558 catalytic residue [active] 644801003559 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 644801003560 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 644801003561 5S rRNA interface [nucleotide binding]; other site 644801003562 CTC domain interface [polypeptide binding]; other site 644801003563 L16 interface [polypeptide binding]; other site 644801003564 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 644801003565 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 644801003566 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801003567 active site 644801003568 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 644801003569 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 644801003570 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 644801003571 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 644801003572 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 644801003573 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 644801003574 TPR motif; other site 644801003575 binding surface 644801003576 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 644801003577 binding surface 644801003578 TPR motif; other site 644801003579 TPR repeat; Region: TPR_11; pfam13414 644801003580 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 644801003581 binding surface 644801003582 TPR motif; other site 644801003583 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 644801003584 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 644801003585 tRNA; other site 644801003586 putative tRNA binding site [nucleotide binding]; other site 644801003587 putative NADP binding site [chemical binding]; other site 644801003588 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 644801003589 peptide chain release factor 1; Validated; Region: prfA; PRK00591 644801003590 This domain is found in peptide chain release factors; Region: PCRF; smart00937 644801003591 RF-1 domain; Region: RF-1; pfam00472 644801003592 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 644801003593 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 644801003594 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 644801003595 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 644801003596 ATP binding site [chemical binding]; other site 644801003597 substrate interface [chemical binding]; other site 644801003598 glutamate racemase; Provisional; Region: PRK00865 644801003599 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 644801003600 Flagellin N-methylase; Region: FliB; pfam03692 644801003601 uracil-xanthine permease; Region: ncs2; TIGR00801 644801003602 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801003603 active site 644801003604 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801003605 active site 644801003606 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 644801003607 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644801003608 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 644801003609 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 644801003610 DNA binding residues [nucleotide binding] 644801003611 dimerization interface [polypeptide binding]; other site 644801003612 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 644801003613 YebG protein; Region: YebG; cl01217 644801003614 Protein of unknown function (DUF721); Region: DUF721; pfam05258 644801003615 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 644801003616 DEAD/DEAH box helicase; Region: DEAD; pfam00270 644801003617 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 644801003618 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 644801003619 nucleotide binding region [chemical binding]; other site 644801003620 ATP-binding site [chemical binding]; other site 644801003621 SEC-C motif; Region: SEC-C; pfam02810 644801003622 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 644801003623 heterotetramer interface [polypeptide binding]; other site 644801003624 active site pocket [active] 644801003625 cleavage site 644801003626 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 644801003627 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 644801003628 putative C-terminal domain interface [polypeptide binding]; other site 644801003629 putative GSH binding site (G-site) [chemical binding]; other site 644801003630 putative dimer interface [polypeptide binding]; other site 644801003631 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 644801003632 putative N-terminal domain interface [polypeptide binding]; other site 644801003633 putative dimer interface [polypeptide binding]; other site 644801003634 putative substrate binding pocket (H-site) [chemical binding]; other site 644801003635 hypothetical protein; Provisional; Region: PRK08999 644801003636 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 644801003637 active site 644801003638 8-oxo-dGMP binding site [chemical binding]; other site 644801003639 nudix motif; other site 644801003640 metal binding site [ion binding]; metal-binding site 644801003641 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 644801003642 thiamine phosphate binding site [chemical binding]; other site 644801003643 active site 644801003644 pyrophosphate binding site [ion binding]; other site 644801003645 peroxiredoxin; Region: AhpC; TIGR03137 644801003646 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 644801003647 dimer interface [polypeptide binding]; other site 644801003648 decamer (pentamer of dimers) interface [polypeptide binding]; other site 644801003649 catalytic triad [active] 644801003650 peroxidatic and resolving cysteines [active] 644801003651 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 644801003652 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 644801003653 catalytic residue [active] 644801003654 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 644801003655 catalytic residues [active] 644801003656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644801003657 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801003658 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 644801003659 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644801003660 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644801003661 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 644801003662 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 644801003663 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 644801003664 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 644801003665 dimerization interface [polypeptide binding]; other site 644801003666 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644801003667 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 644801003668 putative active site [active] 644801003669 heme pocket [chemical binding]; other site 644801003670 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 644801003671 dimer interface [polypeptide binding]; other site 644801003672 phosphorylation site [posttranslational modification] 644801003673 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 644801003674 ATP binding site [chemical binding]; other site 644801003675 Mg2+ binding site [ion binding]; other site 644801003676 G-X-G motif; other site 644801003677 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 644801003678 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 644801003679 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 644801003680 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644801003681 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 644801003682 active site 644801003683 phosphorylation site [posttranslational modification] 644801003684 intermolecular recognition site; other site 644801003685 dimerization interface [polypeptide binding]; other site 644801003686 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801003687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801003688 metal binding site [ion binding]; metal-binding site 644801003689 active site 644801003690 I-site; other site 644801003691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 644801003692 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 644801003693 mechanosensitive channel MscS; Provisional; Region: PRK10334 644801003694 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644801003695 muropeptide transporter; Validated; Region: ampG; cl17669 644801003696 muropeptide transporter; Validated; Region: ampG; cl17669 644801003697 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 644801003698 DNA binding site [nucleotide binding] 644801003699 active site 644801003700 Protein of unknown function, DUF481; Region: DUF481; pfam04338 644801003701 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 644801003702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801003703 NAD(P) binding site [chemical binding]; other site 644801003704 active site 644801003705 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 644801003706 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 644801003707 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 644801003708 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 644801003709 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 644801003710 oligomerisation interface [polypeptide binding]; other site 644801003711 mobile loop; other site 644801003712 roof hairpin; other site 644801003713 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 644801003714 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 644801003715 ring oligomerisation interface [polypeptide binding]; other site 644801003716 ATP/Mg binding site [chemical binding]; other site 644801003717 stacking interactions; other site 644801003718 hinge regions; other site 644801003719 multidrug efflux protein; Reviewed; Region: PRK09579 644801003720 Protein export membrane protein; Region: SecD_SecF; cl14618 644801003721 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644801003722 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801003723 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801003724 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 644801003725 dimerization interface [polypeptide binding]; other site 644801003726 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801003727 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801003728 dimer interface [polypeptide binding]; other site 644801003729 putative CheW interface [polypeptide binding]; other site 644801003730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 644801003731 Imelysin; Region: Peptidase_M75; cl09159 644801003732 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 644801003733 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 644801003734 Imelysin; Region: Peptidase_M75; cl09159 644801003735 LemA family; Region: LemA; cl00742 644801003736 E3 Ubiquitin ligase; Region: GIDE; pfam12483 644801003737 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 644801003738 biofilm formation regulator HmsP; Provisional; Region: PRK11829 644801003739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801003740 metal binding site [ion binding]; metal-binding site 644801003741 active site 644801003742 I-site; other site 644801003743 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 644801003744 superoxide dismutase; Provisional; Region: PRK10543 644801003745 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 644801003746 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 644801003747 Lysine efflux permease [General function prediction only]; Region: COG1279 644801003748 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 644801003749 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801003750 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 644801003751 dimerization interface [polypeptide binding]; other site 644801003752 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 644801003753 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 644801003754 Triacylglycerol lipase-like subfamily of the SGNH 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 hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 644801003755 active site 644801003756 catalytic triad [active] 644801003757 oxyanion hole [active] 644801003758 Autotransporter beta-domain; Region: Autotransporter; smart00869 644801003759 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801003760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801003761 metal binding site [ion binding]; metal-binding site 644801003762 active site 644801003763 I-site; other site 644801003764 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 644801003765 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 644801003766 active site 644801003767 General stress protein [General function prediction only]; Region: GsiB; COG3729 644801003768 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 644801003769 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 644801003770 heme-binding site [chemical binding]; other site 644801003771 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 644801003772 FAD binding pocket [chemical binding]; other site 644801003773 FAD binding motif [chemical binding]; other site 644801003774 phosphate binding motif [ion binding]; other site 644801003775 beta-alpha-beta structure motif; other site 644801003776 NAD binding pocket [chemical binding]; other site 644801003777 Heme binding pocket [chemical binding]; other site 644801003778 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 644801003779 Urea transporter; Region: UT; pfam03253 644801003780 pyruvate kinase; Provisional; Region: PRK06247 644801003781 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 644801003782 domain interfaces; other site 644801003783 active site 644801003784 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 644801003785 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 644801003786 MOFRL family; Region: MOFRL; pfam05161 644801003787 tartronate semialdehyde reductase; Provisional; Region: PRK15059 644801003788 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 644801003789 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 644801003790 glyoxylate carboligase; Provisional; Region: PRK11269 644801003791 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 644801003792 PYR/PP interface [polypeptide binding]; other site 644801003793 dimer interface [polypeptide binding]; other site 644801003794 TPP binding site [chemical binding]; other site 644801003795 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 644801003796 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 644801003797 TPP-binding site [chemical binding]; other site 644801003798 transcriptional activator TtdR; Provisional; Region: PRK09801 644801003799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801003800 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 644801003801 putative effector binding pocket; other site 644801003802 dimerization interface [polypeptide binding]; other site 644801003803 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 644801003804 active site 644801003805 homotetramer interface [polypeptide binding]; other site 644801003806 Domain of unknown function (DUF336); Region: DUF336; pfam03928 644801003807 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 644801003808 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 644801003809 active site 644801003810 phosphorylation site [posttranslational modification] 644801003811 intermolecular recognition site; other site 644801003812 dimerization interface [polypeptide binding]; other site 644801003813 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 644801003814 DNA binding site [nucleotide binding] 644801003815 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 644801003816 HAMP domain; Region: HAMP; pfam00672 644801003817 dimerization interface [polypeptide binding]; other site 644801003818 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 644801003819 dimer interface [polypeptide binding]; other site 644801003820 phosphorylation site [posttranslational modification] 644801003821 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 644801003822 ATP binding site [chemical binding]; other site 644801003823 G-X-G motif; other site 644801003824 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 644801003825 putative catalytic site [active] 644801003826 putative phosphate binding site [ion binding]; other site 644801003827 active site 644801003828 metal binding site A [ion binding]; metal-binding site 644801003829 DNA binding site [nucleotide binding] 644801003830 putative AP binding site [nucleotide binding]; other site 644801003831 putative metal binding site B [ion binding]; other site 644801003832 GAF domain; Region: GAF; cl17456 644801003833 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 644801003834 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 644801003835 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 644801003836 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801003837 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 644801003838 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 644801003839 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 644801003840 xanthine permease; Region: pbuX; TIGR03173 644801003841 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 644801003842 TrkA-N domain; Region: TrkA_N; pfam02254 644801003843 xanthine permease; Region: pbuX; TIGR03173 644801003844 Predicted membrane protein [Function unknown]; Region: COG3748 644801003845 Protein of unknown function (DUF989); Region: DUF989; pfam06181 644801003846 Cytochrome c; Region: Cytochrom_C; pfam00034 644801003847 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 644801003848 ureidoglycolate hydrolase; Provisional; Region: PRK03606 644801003849 allantoicase; Provisional; Region: PRK13257 644801003850 Allantoicase repeat; Region: Allantoicase; pfam03561 644801003851 Allantoicase repeat; Region: Allantoicase; pfam03561 644801003852 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 644801003853 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 644801003854 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 644801003855 active site 644801003856 catalytic site [active] 644801003857 tetramer interface [polypeptide binding]; other site 644801003858 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 644801003859 active site 644801003860 homotetramer interface [polypeptide binding]; other site 644801003861 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 644801003862 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 644801003863 Sulfate transporter family; Region: Sulfate_transp; pfam00916 644801003864 Transcriptional regulators [Transcription]; Region: GntR; COG1802 644801003865 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801003866 DNA-binding site [nucleotide binding]; DNA binding site 644801003867 FCD domain; Region: FCD; pfam07729 644801003868 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801003869 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 644801003870 Walker A/P-loop; other site 644801003871 ATP binding site [chemical binding]; other site 644801003872 Q-loop/lid; other site 644801003873 ABC transporter signature motif; other site 644801003874 Walker B; other site 644801003875 D-loop; other site 644801003876 H-loop/switch region; other site 644801003877 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 644801003878 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 644801003879 ABC-ATPase subunit interface; other site 644801003880 dimer interface [polypeptide binding]; other site 644801003881 putative PBP binding regions; other site 644801003882 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 644801003883 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 644801003884 metal binding site [ion binding]; metal-binding site 644801003885 guanine deaminase; Provisional; Region: PRK09228 644801003886 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 644801003887 active site 644801003888 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 644801003889 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 644801003890 XdhC Rossmann domain; Region: XdhC_C; pfam13478 644801003891 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 644801003892 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 644801003893 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 644801003894 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 644801003895 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 644801003896 catalytic loop [active] 644801003897 iron binding site [ion binding]; other site 644801003898 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 644801003899 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 644801003900 oxidase reductase; Provisional; Region: PTZ00273 644801003901 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 644801003902 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 644801003903 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 644801003904 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 644801003905 putative ligand binding site [chemical binding]; other site 644801003906 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 644801003907 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 644801003908 active site 644801003909 putative substrate binding pocket [chemical binding]; other site 644801003910 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 644801003911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801003912 NAD(P) binding site [chemical binding]; other site 644801003913 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 644801003914 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 644801003915 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644801003916 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 644801003917 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 644801003918 motif II; other site 644801003919 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 644801003920 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 644801003921 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 644801003922 substrate binding pocket [chemical binding]; other site 644801003923 membrane-bound complex binding site; other site 644801003924 hinge residues; other site 644801003925 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 644801003926 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644801003927 catalytic residue [active] 644801003928 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 644801003929 GIY-YIG motif/motif A; other site 644801003930 putative active site [active] 644801003931 putative metal binding site [ion binding]; other site 644801003932 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 644801003933 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 644801003934 C-terminal domain interface [polypeptide binding]; other site 644801003935 GSH binding site (G-site) [chemical binding]; other site 644801003936 dimer interface [polypeptide binding]; other site 644801003937 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 644801003938 substrate binding pocket (H-site) [chemical binding]; other site 644801003939 N-terminal domain interface [polypeptide binding]; other site 644801003940 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 644801003941 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 644801003942 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 644801003943 Nucleoid-associated protein [General function prediction only]; Region: COG3081 644801003944 nucleoid-associated protein NdpA; Validated; Region: PRK00378 644801003945 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 644801003946 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 644801003947 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 644801003948 S-adenosylmethionine binding site [chemical binding]; other site 644801003949 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644801003950 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 644801003951 putative substrate translocation pore; other site 644801003952 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 644801003953 transmembrane helices; other site 644801003954 TrkA-C domain; Region: TrkA_C; pfam02080 644801003955 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644801003956 TrkA-C domain; Region: TrkA_C; pfam02080 644801003957 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 644801003958 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 644801003959 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 644801003960 NHAD transporter family protein; Provisional; Region: PLN00137 644801003961 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 644801003962 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 644801003963 HIGH motif; other site 644801003964 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644801003965 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 644801003966 active site 644801003967 KMSKS motif; other site 644801003968 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 644801003969 tRNA binding surface [nucleotide binding]; other site 644801003970 anticodon binding site; other site 644801003971 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 644801003972 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 644801003973 multifunctional aminopeptidase A; Provisional; Region: PRK00913 644801003974 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 644801003975 interface (dimer of trimers) [polypeptide binding]; other site 644801003976 Substrate-binding/catalytic site; other site 644801003977 Zn-binding sites [ion binding]; other site 644801003978 Predicted permeases [General function prediction only]; Region: COG0795 644801003979 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 644801003980 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 644801003981 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 644801003982 RDD family; Region: RDD; pfam06271 644801003983 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 644801003984 DNA-binding site [nucleotide binding]; DNA binding site 644801003985 RNA-binding motif; other site 644801003986 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 644801003987 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 644801003988 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 644801003989 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 644801003990 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 644801003991 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 644801003992 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 644801003993 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 644801003994 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 644801003995 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 644801003996 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 644801003997 Protein export membrane protein; Region: SecD_SecF; pfam02355 644801003998 hypothetical protein; Provisional; Region: PRK11280 644801003999 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 644801004000 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 644801004001 active site 644801004002 dimerization interface [polypeptide binding]; other site 644801004003 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 644801004004 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 644801004005 serine O-acetyltransferase; Region: cysE; TIGR01172 644801004006 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 644801004007 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 644801004008 trimer interface [polypeptide binding]; other site 644801004009 active site 644801004010 substrate binding site [chemical binding]; other site 644801004011 CoA binding site [chemical binding]; other site 644801004012 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 644801004013 Rrf2 family protein; Region: rrf2_super; TIGR00738 644801004014 cysteine desulfurase; Provisional; Region: PRK14012 644801004015 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 644801004016 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644801004017 catalytic residue [active] 644801004018 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 644801004019 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 644801004020 trimerization site [polypeptide binding]; other site 644801004021 active site 644801004022 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 644801004023 co-chaperone HscB; Provisional; Region: hscB; PRK00294 644801004024 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 644801004025 HSP70 interaction site [polypeptide binding]; other site 644801004026 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 644801004027 chaperone protein HscA; Provisional; Region: hscA; PRK05183 644801004028 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 644801004029 nucleotide binding site [chemical binding]; other site 644801004030 putative NEF/HSP70 interaction site [polypeptide binding]; other site 644801004031 SBD interface [polypeptide binding]; other site 644801004032 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 644801004033 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 644801004034 catalytic loop [active] 644801004035 iron binding site [ion binding]; other site 644801004036 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 644801004037 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 644801004038 active site 644801004039 multimer interface [polypeptide binding]; other site 644801004040 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 644801004041 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 644801004042 FeS/SAM binding site; other site 644801004043 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 644801004044 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 644801004045 binding surface 644801004046 TPR motif; other site 644801004047 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 644801004048 binding surface 644801004049 TPR motif; other site 644801004050 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 644801004051 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 644801004052 non-specific DNA binding site [nucleotide binding]; other site 644801004053 salt bridge; other site 644801004054 sequence-specific DNA binding site [nucleotide binding]; other site 644801004055 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 644801004056 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 644801004057 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 644801004058 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 644801004059 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 644801004060 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 644801004061 dimer interface [polypeptide binding]; other site 644801004062 motif 1; other site 644801004063 active site 644801004064 motif 2; other site 644801004065 motif 3; other site 644801004066 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 644801004067 anticodon binding site; other site 644801004068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 644801004069 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 644801004070 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 644801004071 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 644801004072 Trp docking motif [polypeptide binding]; other site 644801004073 active site 644801004074 GTP-binding protein Der; Reviewed; Region: PRK00093 644801004075 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 644801004076 G1 box; other site 644801004077 GTP/Mg2+ binding site [chemical binding]; other site 644801004078 Switch I region; other site 644801004079 G2 box; other site 644801004080 Switch II region; other site 644801004081 G3 box; other site 644801004082 G4 box; other site 644801004083 G5 box; other site 644801004084 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 644801004085 G1 box; other site 644801004086 GTP/Mg2+ binding site [chemical binding]; other site 644801004087 Switch I region; other site 644801004088 G2 box; other site 644801004089 G3 box; other site 644801004090 Switch II region; other site 644801004091 G4 box; other site 644801004092 G5 box; other site 644801004093 serine acetyltransferase; Provisional; Region: cysE; PRK11132 644801004094 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 644801004095 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 644801004096 trimer interface [polypeptide binding]; other site 644801004097 active site 644801004098 substrate binding site [chemical binding]; other site 644801004099 CoA binding site [chemical binding]; other site 644801004100 methionine aminotransferase; Validated; Region: PRK09082 644801004101 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 644801004102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801004103 homodimer interface [polypeptide binding]; other site 644801004104 catalytic residue [active] 644801004105 C-N hydrolase family amidase; Provisional; Region: PRK10438 644801004106 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 644801004107 putative active site [active] 644801004108 catalytic triad [active] 644801004109 dimer interface [polypeptide binding]; other site 644801004110 multimer interface [polypeptide binding]; other site 644801004111 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 644801004112 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 644801004113 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 644801004114 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 644801004115 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 644801004116 EamA-like transporter family; Region: EamA; pfam00892 644801004117 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 644801004118 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 644801004119 putative NAD(P) binding site [chemical binding]; other site 644801004120 putative substrate binding site [chemical binding]; other site 644801004121 catalytic Zn binding site [ion binding]; other site 644801004122 structural Zn binding site [ion binding]; other site 644801004123 dimer interface [polypeptide binding]; other site 644801004124 2-isopropylmalate synthase; Validated; Region: PRK03739 644801004125 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 644801004126 active site 644801004127 catalytic residues [active] 644801004128 metal binding site [ion binding]; metal-binding site 644801004129 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 644801004130 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 644801004131 N-terminal plug; other site 644801004132 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 644801004133 ligand-binding site [chemical binding]; other site 644801004134 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 644801004135 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644801004136 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 644801004137 Isochorismatase family; Region: Isochorismatase; pfam00857 644801004138 catalytic triad [active] 644801004139 dimer interface [polypeptide binding]; other site 644801004140 conserved cis-peptide bond; other site 644801004141 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 644801004142 Peptidase family M23; Region: Peptidase_M23; pfam01551 644801004143 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 644801004144 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 644801004145 generic binding surface II; other site 644801004146 generic binding surface I; other site 644801004147 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 644801004148 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 644801004149 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 644801004150 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 644801004151 active site 644801004152 GMP synthase; Reviewed; Region: guaA; PRK00074 644801004153 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 644801004154 AMP/PPi binding site [chemical binding]; other site 644801004155 candidate oxyanion hole; other site 644801004156 catalytic triad [active] 644801004157 potential glutamine specificity residues [chemical binding]; other site 644801004158 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 644801004159 ATP Binding subdomain [chemical binding]; other site 644801004160 Ligand Binding sites [chemical binding]; other site 644801004161 Dimerization subdomain; other site 644801004162 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 644801004163 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 644801004164 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 644801004165 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 644801004166 nucleoside/Zn binding site; other site 644801004167 dimer interface [polypeptide binding]; other site 644801004168 catalytic motif [active] 644801004169 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 644801004170 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 644801004171 Walker A/P-loop; other site 644801004172 ATP binding site [chemical binding]; other site 644801004173 Q-loop/lid; other site 644801004174 ABC transporter signature motif; other site 644801004175 Walker B; other site 644801004176 D-loop; other site 644801004177 H-loop/switch region; other site 644801004178 TOBE domain; Region: TOBE_2; pfam08402 644801004179 ornithine carbamoyltransferase; Provisional; Region: PRK00779 644801004180 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 644801004181 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 644801004182 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 644801004183 putative GSH binding site [chemical binding]; other site 644801004184 catalytic residues [active] 644801004185 VanZ like family; Region: VanZ; cl01971 644801004186 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 644801004187 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 644801004188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801004189 homodimer interface [polypeptide binding]; other site 644801004190 catalytic residue [active] 644801004191 excinuclease ABC subunit B; Provisional; Region: PRK05298 644801004192 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 644801004193 ATP binding site [chemical binding]; other site 644801004194 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 644801004195 nucleotide binding region [chemical binding]; other site 644801004196 ATP-binding site [chemical binding]; other site 644801004197 Ultra-violet resistance protein B; Region: UvrB; pfam12344 644801004198 UvrB/uvrC motif; Region: UVR; pfam02151 644801004199 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 644801004200 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 644801004201 HIGH motif; other site 644801004202 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 644801004203 active site 644801004204 KMSKS motif; other site 644801004205 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 644801004206 active site 644801004207 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 644801004208 active site 644801004209 DNA polymerase IV; Validated; Region: PRK02406 644801004210 DNA binding site [nucleotide binding] 644801004211 META domain; Region: META; pfam03724 644801004212 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 644801004213 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644801004214 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644801004215 Walker A/P-loop; other site 644801004216 ATP binding site [chemical binding]; other site 644801004217 Q-loop/lid; other site 644801004218 ABC transporter signature motif; other site 644801004219 Walker B; other site 644801004220 D-loop; other site 644801004221 H-loop/switch region; other site 644801004222 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 644801004223 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 644801004224 Walker A/P-loop; other site 644801004225 ATP binding site [chemical binding]; other site 644801004226 Q-loop/lid; other site 644801004227 ABC transporter signature motif; other site 644801004228 Walker B; other site 644801004229 D-loop; other site 644801004230 H-loop/switch region; other site 644801004231 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 644801004232 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 644801004233 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 644801004234 TM-ABC transporter signature motif; other site 644801004235 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644801004236 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 644801004237 TM-ABC transporter signature motif; other site 644801004238 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 644801004239 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 644801004240 dimerization interface [polypeptide binding]; other site 644801004241 ligand binding site [chemical binding]; other site 644801004242 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 644801004243 Peptidase family M48; Region: Peptidase_M48; cl12018 644801004244 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 644801004245 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 644801004246 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 644801004247 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 644801004248 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801004249 dimer interface [polypeptide binding]; other site 644801004250 conserved gate region; other site 644801004251 putative PBP binding loops; other site 644801004252 ABC-ATPase subunit interface; other site 644801004253 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 644801004254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801004255 Walker A/P-loop; other site 644801004256 ATP binding site [chemical binding]; other site 644801004257 Q-loop/lid; other site 644801004258 ABC transporter signature motif; other site 644801004259 Walker B; other site 644801004260 D-loop; other site 644801004261 H-loop/switch region; other site 644801004262 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 644801004263 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 644801004264 substrate binding pocket [chemical binding]; other site 644801004265 membrane-bound complex binding site; other site 644801004266 hinge residues; other site 644801004267 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 644801004268 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 644801004269 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 644801004270 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 644801004271 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 644801004272 putative substrate translocation pore; other site 644801004273 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644801004274 putative chaperone; Provisional; Region: PRK11678 644801004275 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 644801004276 nucleotide binding site [chemical binding]; other site 644801004277 putative NEF/HSP70 interaction site [polypeptide binding]; other site 644801004278 SBD interface [polypeptide binding]; other site 644801004279 CHAD domain; Region: CHAD; pfam05235 644801004280 ATP-dependent helicase HepA; Validated; Region: PRK04914 644801004281 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 644801004282 ATP binding site [chemical binding]; other site 644801004283 putative Mg++ binding site [ion binding]; other site 644801004284 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 644801004285 nucleotide binding region [chemical binding]; other site 644801004286 ATP-binding site [chemical binding]; other site 644801004287 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 644801004288 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 644801004289 carbohydrate binding site [chemical binding]; other site 644801004290 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 644801004291 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 644801004292 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 644801004293 Ca binding site [ion binding]; other site 644801004294 active site 644801004295 catalytic site [active] 644801004296 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 644801004297 (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 644801004298 dimer interaction site [polypeptide binding]; other site 644801004299 substrate-binding tunnel; other site 644801004300 active site 644801004301 catalytic site [active] 644801004302 substrate binding site [chemical binding]; other site 644801004303 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 644801004304 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 644801004305 acyl-activating enzyme (AAE) consensus motif; other site 644801004306 putative AMP binding site [chemical binding]; other site 644801004307 putative active site [active] 644801004308 putative CoA binding site [chemical binding]; other site 644801004309 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 644801004310 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 644801004311 acyl-activating enzyme (AAE) consensus motif; other site 644801004312 putative AMP binding site [chemical binding]; other site 644801004313 putative active site [active] 644801004314 putative CoA binding site [chemical binding]; other site 644801004315 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 644801004316 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 644801004317 dimerization interface [polypeptide binding]; other site 644801004318 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801004319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801004320 dimer interface [polypeptide binding]; other site 644801004321 putative CheW interface [polypeptide binding]; other site 644801004322 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 644801004323 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 644801004324 dimerization interface [polypeptide binding]; other site 644801004325 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801004326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801004327 dimer interface [polypeptide binding]; other site 644801004328 putative CheW interface [polypeptide binding]; other site 644801004329 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 644801004330 PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the...; Region: PA_SaNapH_like; cd04816 644801004331 PA/protease or protease-like domain interface [polypeptide binding]; other site 644801004332 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 644801004333 Peptidase family M28; Region: Peptidase_M28; pfam04389 644801004334 active site 644801004335 metal binding site [ion binding]; metal-binding site 644801004336 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 644801004337 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 644801004338 ATP binding site [chemical binding]; other site 644801004339 putative Mg++ binding site [ion binding]; other site 644801004340 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 644801004341 nucleotide binding region [chemical binding]; other site 644801004342 ATP-binding site [chemical binding]; other site 644801004343 Helicase associated domain (HA2); Region: HA2; pfam04408 644801004344 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 644801004345 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 644801004346 Predicted permeases [General function prediction only]; Region: RarD; COG2962 644801004347 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 644801004348 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 644801004349 phosphopeptide binding site; other site 644801004350 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 644801004351 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 644801004352 phosphopeptide binding site; other site 644801004353 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 644801004354 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644801004355 active site 644801004356 ATP binding site [chemical binding]; other site 644801004357 substrate binding site [chemical binding]; other site 644801004358 activation loop (A-loop); other site 644801004359 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 644801004360 Protein phosphatase 2C; Region: PP2C; pfam00481 644801004361 active site 644801004362 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 644801004363 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 644801004364 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 644801004365 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 644801004366 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644801004367 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 644801004368 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 644801004369 S-adenosylmethionine binding site [chemical binding]; other site 644801004370 hypothetical protein; Provisional; Region: PRK11171 644801004371 Cupin domain; Region: Cupin_2; pfam07883 644801004372 Cupin domain; Region: Cupin_2; pfam07883 644801004373 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644801004374 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644801004375 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644801004376 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644801004377 Predicted membrane protein [Function unknown]; Region: COG3503 644801004378 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 644801004379 dimer interface [polypeptide binding]; other site 644801004380 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801004381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 644801004382 CAAX protease self-immunity; Region: Abi; pfam02517 644801004383 Predicted periplasmic protein [Function unknown]; Region: COG3904 644801004384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 644801004385 MOSC domain; Region: MOSC; pfam03473 644801004386 glutamate carboxypeptidase; Reviewed; Region: PRK06133 644801004387 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 644801004388 metal binding site [ion binding]; metal-binding site 644801004389 dimer interface [polypeptide binding]; other site 644801004390 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 644801004391 HIT family signature motif; other site 644801004392 catalytic residue [active] 644801004393 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644801004394 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 644801004395 membrane-bound complex binding site; other site 644801004396 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644801004397 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801004398 dimer interface [polypeptide binding]; other site 644801004399 conserved gate region; other site 644801004400 putative PBP binding loops; other site 644801004401 ABC-ATPase subunit interface; other site 644801004402 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 644801004403 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801004404 Walker A/P-loop; other site 644801004405 ATP binding site [chemical binding]; other site 644801004406 Q-loop/lid; other site 644801004407 ABC transporter signature motif; other site 644801004408 Walker B; other site 644801004409 D-loop; other site 644801004410 H-loop/switch region; other site 644801004411 Protein of unknown function (DUF445); Region: DUF445; pfam04286 644801004412 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 644801004413 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 644801004414 dimerization interface [polypeptide binding]; other site 644801004415 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801004416 dimer interface [polypeptide binding]; other site 644801004417 putative CheW interface [polypeptide binding]; other site 644801004418 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 644801004419 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 644801004420 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801004421 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801004422 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801004423 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 644801004424 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644801004425 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 644801004426 dimerization interface [polypeptide binding]; other site 644801004427 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801004428 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801004429 dimer interface [polypeptide binding]; other site 644801004430 putative CheW interface [polypeptide binding]; other site 644801004431 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644801004432 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644801004433 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 644801004434 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 644801004435 putative substrate translocation pore; other site 644801004436 Nitrate and nitrite sensing; Region: NIT; pfam08376 644801004437 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 644801004438 dimerization interface [polypeptide binding]; other site 644801004439 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801004440 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801004441 dimer interface [polypeptide binding]; other site 644801004442 putative CheW interface [polypeptide binding]; other site 644801004443 hypothetical protein; Provisional; Region: PRK09272 644801004444 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 644801004445 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 644801004446 transmembrane helices; other site 644801004447 TrkA-C domain; Region: TrkA_C; pfam02080 644801004448 TrkA-C domain; Region: TrkA_C; pfam02080 644801004449 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 644801004450 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644801004451 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 644801004452 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 644801004453 DNA topoisomerase III; Provisional; Region: PRK07726 644801004454 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 644801004455 active site 644801004456 putative interdomain interaction site [polypeptide binding]; other site 644801004457 putative metal-binding site [ion binding]; other site 644801004458 putative nucleotide binding site [chemical binding]; other site 644801004459 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 644801004460 domain I; other site 644801004461 DNA binding groove [nucleotide binding] 644801004462 phosphate binding site [ion binding]; other site 644801004463 domain II; other site 644801004464 domain III; other site 644801004465 nucleotide binding site [chemical binding]; other site 644801004466 catalytic site [active] 644801004467 domain IV; other site 644801004468 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 644801004469 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 644801004470 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 644801004471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 644801004472 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644801004473 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 644801004474 TM-ABC transporter signature motif; other site 644801004475 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644801004476 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 644801004477 TM-ABC transporter signature motif; other site 644801004478 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 644801004479 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 644801004480 Walker A/P-loop; other site 644801004481 ATP binding site [chemical binding]; other site 644801004482 Q-loop/lid; other site 644801004483 ABC transporter signature motif; other site 644801004484 Walker B; other site 644801004485 D-loop; other site 644801004486 H-loop/switch region; other site 644801004487 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 644801004488 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 644801004489 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801004490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801004491 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 644801004492 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 644801004493 classical (c) SDRs; Region: SDR_c; cd05233 644801004494 NAD(P) binding site [chemical binding]; other site 644801004495 active site 644801004496 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 644801004497 nucleoside/Zn binding site; other site 644801004498 dimer interface [polypeptide binding]; other site 644801004499 catalytic motif [active] 644801004500 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644801004501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801004502 putative PBP binding loops; other site 644801004503 dimer interface [polypeptide binding]; other site 644801004504 ABC-ATPase subunit interface; other site 644801004505 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 644801004506 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 644801004507 Walker A/P-loop; other site 644801004508 ATP binding site [chemical binding]; other site 644801004509 Q-loop/lid; other site 644801004510 ABC transporter signature motif; other site 644801004511 Walker B; other site 644801004512 D-loop; other site 644801004513 H-loop/switch region; other site 644801004514 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 644801004515 NMT1/THI5 like; Region: NMT1; pfam09084 644801004516 substrate binding pocket [chemical binding]; other site 644801004517 membrane-bound complex binding site; other site 644801004518 hinge residues; other site 644801004519 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644801004520 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 644801004521 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 644801004522 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 644801004523 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 644801004524 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 644801004525 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801004526 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 644801004527 putative DNA binding site [nucleotide binding]; other site 644801004528 putative Zn2+ binding site [ion binding]; other site 644801004529 AsnC family; Region: AsnC_trans_reg; pfam01037 644801004530 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 644801004531 S-adenosylmethionine binding site [chemical binding]; other site 644801004532 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801004533 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 644801004534 dimer interface [polypeptide binding]; other site 644801004535 phosphorylation site [posttranslational modification] 644801004536 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 644801004537 ATP binding site [chemical binding]; other site 644801004538 G-X-G motif; other site 644801004539 Response regulator receiver domain; Region: Response_reg; pfam00072 644801004540 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 644801004541 active site 644801004542 phosphorylation site [posttranslational modification] 644801004543 intermolecular recognition site; other site 644801004544 dimerization interface [polypeptide binding]; other site 644801004545 circadian clock protein KaiC; Reviewed; Region: PRK09302 644801004546 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 644801004547 Walker A motif; other site 644801004548 ATP binding site [chemical binding]; other site 644801004549 Walker B motif; other site 644801004550 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 644801004551 Walker A motif; other site 644801004552 ATP binding site [chemical binding]; other site 644801004553 Walker B motif; other site 644801004554 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 644801004555 ABC1 family; Region: ABC1; cl17513 644801004556 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 644801004557 active site 644801004558 ATP binding site [chemical binding]; other site 644801004559 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 644801004560 C factor cell-cell signaling protein; Provisional; Region: PRK09009 644801004561 NADP binding site [chemical binding]; other site 644801004562 homodimer interface [polypeptide binding]; other site 644801004563 active site 644801004564 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801004565 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 644801004566 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 644801004567 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 644801004568 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 644801004569 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801004570 Restriction endonuclease; Region: Mrr_cat; pfam04471 644801004571 Transposase domain (DUF772); Region: DUF772; pfam05598 644801004572 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 644801004573 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 644801004574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801004575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801004576 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 644801004577 putative effector binding pocket; other site 644801004578 putative dimerization interface [polypeptide binding]; other site 644801004579 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801004580 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 644801004581 active site 644801004582 metal binding site [ion binding]; metal-binding site 644801004583 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 644801004584 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 644801004585 putative C-terminal domain interface [polypeptide binding]; other site 644801004586 putative GSH binding site (G-site) [chemical binding]; other site 644801004587 putative dimer interface [polypeptide binding]; other site 644801004588 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 644801004589 putative N-terminal domain interface [polypeptide binding]; other site 644801004590 putative dimer interface [polypeptide binding]; other site 644801004591 putative substrate binding pocket (H-site) [chemical binding]; other site 644801004592 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 644801004593 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 644801004594 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 644801004595 Trp docking motif [polypeptide binding]; other site 644801004596 cytochrome domain interface [polypeptide binding]; other site 644801004597 active site 644801004598 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 644801004599 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 644801004600 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 644801004601 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 644801004602 E3 interaction surface; other site 644801004603 lipoyl attachment site [posttranslational modification]; other site 644801004604 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 644801004605 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 644801004606 alpha subunit interface [polypeptide binding]; other site 644801004607 TPP binding site [chemical binding]; other site 644801004608 heterodimer interface [polypeptide binding]; other site 644801004609 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644801004610 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 644801004611 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 644801004612 putative NAD(P) binding site [chemical binding]; other site 644801004613 catalytic Zn binding site [ion binding]; other site 644801004614 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 644801004615 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 644801004616 tetramer interface [polypeptide binding]; other site 644801004617 TPP-binding site [chemical binding]; other site 644801004618 heterodimer interface [polypeptide binding]; other site 644801004619 phosphorylation loop region [posttranslational modification] 644801004620 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 644801004621 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 644801004622 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 644801004623 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 644801004624 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 644801004625 Walker A motif; other site 644801004626 ATP binding site [chemical binding]; other site 644801004627 Walker B motif; other site 644801004628 arginine finger; other site 644801004629 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801004630 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 644801004631 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 644801004632 putative NAD(P) binding site [chemical binding]; other site 644801004633 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 644801004634 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 644801004635 S-adenosylmethionine binding site [chemical binding]; other site 644801004636 Domain of unknown function (DUF305); Region: DUF305; cl17794 644801004637 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 644801004638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801004639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801004640 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 644801004641 dimerization interface [polypeptide binding]; other site 644801004642 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 644801004643 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801004644 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 644801004645 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 644801004646 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801004647 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801004648 Curlin associated repeat; Region: Curlin_rpt; pfam07012 644801004649 Curlin associated repeat; Region: Curlin_rpt; pfam07012 644801004650 Curlin associated repeat; Region: Curlin_rpt; pfam07012 644801004651 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 644801004652 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 644801004653 curli assembly protein CsgE; Provisional; Region: PRK10386 644801004654 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 644801004655 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 644801004656 DNA binding residues [nucleotide binding] 644801004657 dimerization interface [polypeptide binding]; other site 644801004658 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 644801004659 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_14; cd08355 644801004660 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801004661 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 644801004662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801004663 NAD(P) binding site [chemical binding]; other site 644801004664 active site 644801004665 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 644801004666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801004667 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 644801004668 putative dimerization interface [polypeptide binding]; other site 644801004669 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 644801004670 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 644801004671 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 644801004672 THF binding site; other site 644801004673 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 644801004674 substrate binding site [chemical binding]; other site 644801004675 THF binding site; other site 644801004676 zinc-binding site [ion binding]; other site 644801004677 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 644801004678 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 644801004679 putative deacylase active site [active] 644801004680 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 644801004681 MASE2 domain; Region: MASE2; pfam05230 644801004682 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801004683 metal binding site [ion binding]; metal-binding site 644801004684 active site 644801004685 I-site; other site 644801004686 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 644801004687 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 644801004688 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 644801004689 Cytochrome c; Region: Cytochrom_C; cl11414 644801004690 Cytochrome c; Region: Cytochrom_C; cl11414 644801004691 Cytochrome c [Energy production and conversion]; Region: COG3258 644801004692 Cytochrome c; Region: Cytochrom_C; pfam00034 644801004693 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 644801004694 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 644801004695 dimer interface [polypeptide binding]; other site 644801004696 active site 644801004697 CoA binding pocket [chemical binding]; other site 644801004698 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 644801004699 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 644801004700 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 644801004701 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644801004702 catalytic residue [active] 644801004703 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 644801004704 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 644801004705 putative trimer interface [polypeptide binding]; other site 644801004706 putative CoA binding site [chemical binding]; other site 644801004707 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 644801004708 ArsC family; Region: ArsC; pfam03960 644801004709 putative catalytic residues [active] 644801004710 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 644801004711 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644801004712 catalytic residues [active] 644801004713 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 644801004714 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 644801004715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801004716 homodimer interface [polypeptide binding]; other site 644801004717 catalytic residue [active] 644801004718 Predicted membrane protein [Function unknown]; Region: COG3650 644801004719 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 644801004720 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 644801004721 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 644801004722 active site 644801004723 substrate binding site [chemical binding]; other site 644801004724 cosubstrate binding site; other site 644801004725 catalytic site [active] 644801004726 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 644801004727 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 644801004728 dimerization interface [polypeptide binding]; other site 644801004729 putative ATP binding site [chemical binding]; other site 644801004730 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 644801004731 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 644801004732 Domain of unknown function DUF20; Region: UPF0118; pfam01594 644801004733 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 644801004734 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 644801004735 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 644801004736 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 644801004737 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644801004738 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 644801004739 ArsC family; Region: ArsC; pfam03960 644801004740 catalytic residues [active] 644801004741 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 644801004742 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 644801004743 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644801004744 catalytic residues [active] 644801004745 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 644801004746 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 644801004747 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644801004748 catalytic residue [active] 644801004749 prolyl-tRNA synthetase; Provisional; Region: PRK09194 644801004750 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 644801004751 dimer interface [polypeptide binding]; other site 644801004752 motif 1; other site 644801004753 active site 644801004754 motif 2; other site 644801004755 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 644801004756 putative deacylase active site [active] 644801004757 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 644801004758 active site 644801004759 motif 3; other site 644801004760 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 644801004761 anticodon binding site; other site 644801004762 outer membrane porin, OprD family; Region: OprD; pfam03573 644801004763 HIT domain; Region: HIT; pfam01230 644801004764 nucleotide binding site/active site [active] 644801004765 HIT family signature motif; other site 644801004766 catalytic residue [active] 644801004767 hypothetical protein; Provisional; Region: PRK00295 644801004768 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 644801004769 DNA-binding site [nucleotide binding]; DNA binding site 644801004770 RNA-binding motif; other site 644801004771 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 644801004772 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 644801004773 dimerization interface [polypeptide binding]; other site 644801004774 DPS ferroxidase diiron center [ion binding]; other site 644801004775 ion pore; other site 644801004776 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 644801004777 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 644801004778 dimer interface [polypeptide binding]; other site 644801004779 anticodon binding site; other site 644801004780 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 644801004781 homodimer interface [polypeptide binding]; other site 644801004782 motif 1; other site 644801004783 active site 644801004784 motif 2; other site 644801004785 GAD domain; Region: GAD; pfam02938 644801004786 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 644801004787 active site 644801004788 motif 3; other site 644801004789 hypothetical protein; Validated; Region: PRK00110 644801004790 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 644801004791 active site 644801004792 putative DNA-binding cleft [nucleotide binding]; other site 644801004793 dimer interface [polypeptide binding]; other site 644801004794 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 644801004795 RuvA N terminal domain; Region: RuvA_N; pfam01330 644801004796 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 644801004797 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 644801004798 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 644801004799 Walker A motif; other site 644801004800 ATP binding site [chemical binding]; other site 644801004801 Walker B motif; other site 644801004802 arginine finger; other site 644801004803 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 644801004804 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 644801004805 active site 644801004806 TolQ protein; Region: tolQ; TIGR02796 644801004807 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 644801004808 TolR protein; Region: tolR; TIGR02801 644801004809 TolA protein; Region: tolA_full; TIGR02794 644801004810 TolA protein; Region: tolA_full; TIGR02794 644801004811 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 644801004812 translocation protein TolB; Provisional; Region: tolB; PRK00178 644801004813 TolB amino-terminal domain; Region: TolB_N; pfam04052 644801004814 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 644801004815 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 644801004816 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 644801004817 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801004818 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801004819 ligand binding site [chemical binding]; other site 644801004820 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 644801004821 Tetratricopeptide repeat; Region: TPR_6; pfam13174 644801004822 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 644801004823 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 644801004824 FeS/SAM binding site; other site 644801004825 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 644801004826 Ligand Binding Site [chemical binding]; other site 644801004827 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644801004828 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 644801004829 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 644801004830 quinolinate synthetase; Provisional; Region: PRK09375 644801004831 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 644801004832 Peptidase family M48; Region: Peptidase_M48; cl12018 644801004833 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 644801004834 CPxP motif; other site 644801004835 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 644801004836 Domain of unknown function DUF20; Region: UPF0118; pfam01594 644801004837 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 644801004838 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 644801004839 catalytic triad [active] 644801004840 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 644801004841 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644801004842 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 644801004843 dihydrodipicolinate synthase; Region: dapA; TIGR00674 644801004844 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 644801004845 dimer interface [polypeptide binding]; other site 644801004846 active site 644801004847 catalytic residue [active] 644801004848 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 644801004849 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 644801004850 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 644801004851 ATP binding site [chemical binding]; other site 644801004852 active site 644801004853 substrate binding site [chemical binding]; other site 644801004854 DNA polymerase II; Reviewed; Region: PRK05762 644801004855 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 644801004856 active site 644801004857 catalytic site [active] 644801004858 substrate binding site [chemical binding]; other site 644801004859 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 644801004860 active site 644801004861 metal-binding site 644801004862 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 644801004863 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 644801004864 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 644801004865 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 644801004866 Sel1 repeat; Region: Sel1; cl02723 644801004867 RmuC family; Region: RmuC; pfam02646 644801004868 Predicted membrane protein [Function unknown]; Region: COG3174 644801004869 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 644801004870 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 644801004871 Na binding site [ion binding]; other site 644801004872 PAS domain; Region: PAS; smart00091 644801004873 PAS fold; Region: PAS_7; pfam12860 644801004874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801004875 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 644801004876 dimer interface [polypeptide binding]; other site 644801004877 phosphorylation site [posttranslational modification] 644801004878 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 644801004879 ATP binding site [chemical binding]; other site 644801004880 Mg2+ binding site [ion binding]; other site 644801004881 G-X-G motif; other site 644801004882 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801004883 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 644801004884 active site 644801004885 phosphorylation site [posttranslational modification] 644801004886 intermolecular recognition site; other site 644801004887 dimerization interface [polypeptide binding]; other site 644801004888 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 644801004889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 644801004890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 644801004891 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 644801004892 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 644801004893 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 644801004894 recombination associated protein; Reviewed; Region: rdgC; PRK00321 644801004895 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 644801004896 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 644801004897 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644801004898 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 644801004899 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 644801004900 heme binding site [chemical binding]; other site 644801004901 ferroxidase pore; other site 644801004902 ferroxidase diiron center [ion binding]; other site 644801004903 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 644801004904 YaeQ protein; Region: YaeQ; pfam07152 644801004905 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 644801004906 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 644801004907 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 644801004908 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 644801004909 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 644801004910 putative active site [active] 644801004911 MarR family; Region: MarR_2; cl17246 644801004912 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 644801004913 DHH family; Region: DHH; pfam01368 644801004914 DHHA1 domain; Region: DHHA1; pfam02272 644801004915 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 644801004916 The MopB_1 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. These members belong to...; Region: MopB_1; cd02762 644801004917 putative [Fe4-S4] binding site [ion binding]; other site 644801004918 putative molybdopterin cofactor binding site [chemical binding]; other site 644801004919 The MopB_CT_1 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_1; cd02782 644801004920 putative molybdopterin cofactor binding site; other site 644801004921 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644801004922 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 644801004923 active site 644801004924 FMN binding site [chemical binding]; other site 644801004925 substrate binding site [chemical binding]; other site 644801004926 homotetramer interface [polypeptide binding]; other site 644801004927 catalytic residue [active] 644801004928 Protein of unknown function (DUF533); Region: DUF533; pfam04391 644801004929 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 644801004930 putative metal binding site [ion binding]; other site 644801004931 peptide chain release factor 2; Validated; Region: prfB; PRK00578 644801004932 This domain is found in peptide chain release factors; Region: PCRF; smart00937 644801004933 RF-1 domain; Region: RF-1; pfam00472 644801004934 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 644801004935 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 644801004936 dimer interface [polypeptide binding]; other site 644801004937 putative anticodon binding site; other site 644801004938 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 644801004939 motif 1; other site 644801004940 active site 644801004941 motif 2; other site 644801004942 motif 3; other site 644801004943 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 644801004944 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 644801004945 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801004946 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801004947 ligand binding site [chemical binding]; other site 644801004948 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 644801004949 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 644801004950 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 644801004951 adenylate kinase; Reviewed; Region: adk; PRK00279 644801004952 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 644801004953 AMP-binding site [chemical binding]; other site 644801004954 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 644801004955 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 644801004956 Glycoprotease family; Region: Peptidase_M22; pfam00814 644801004957 Protein of unknown function DUF72; Region: DUF72; cl00777 644801004958 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 644801004959 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 644801004960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801004961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801004962 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 644801004963 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644801004964 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801004965 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801004966 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644801004967 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801004968 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801004969 PAS domain S-box; Region: sensory_box; TIGR00229 644801004970 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 644801004971 putative active site [active] 644801004972 heme pocket [chemical binding]; other site 644801004973 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644801004974 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644801004975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801004976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801004977 metal binding site [ion binding]; metal-binding site 644801004978 active site 644801004979 I-site; other site 644801004980 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 644801004981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801004982 DNA-binding site [nucleotide binding]; DNA binding site 644801004983 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 644801004984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801004985 homodimer interface [polypeptide binding]; other site 644801004986 catalytic residue [active] 644801004987 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 644801004988 4Fe-4S binding domain; Region: Fer4_5; pfam12801 644801004989 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 644801004990 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 644801004991 LrgA family; Region: LrgA; cl00608 644801004992 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 644801004993 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 644801004994 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 644801004995 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 644801004996 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 644801004997 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 644801004998 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 644801004999 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644801005000 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 644801005001 Ligand binding site; other site 644801005002 DXD motif; other site 644801005003 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 644801005004 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644801005005 Pirin-related protein [General function prediction only]; Region: COG1741 644801005006 Pirin; Region: Pirin; pfam02678 644801005007 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 644801005008 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644801005009 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 644801005010 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801005011 Coenzyme A binding pocket [chemical binding]; other site 644801005012 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 644801005013 outer membrane porin, OprD family; Region: OprD; pfam03573 644801005014 citrate-proton symporter; Provisional; Region: PRK15075 644801005015 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 644801005016 putative substrate translocation pore; other site 644801005017 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 644801005018 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 644801005019 metal binding site [ion binding]; metal-binding site 644801005020 putative dimer interface [polypeptide binding]; other site 644801005021 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 644801005022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801005023 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 644801005024 dimerization interface [polypeptide binding]; other site 644801005025 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801005026 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 644801005027 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 644801005028 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 644801005029 Multicopper oxidase; Region: Cu-oxidase; pfam00394 644801005030 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 644801005031 hypothetical protein; Provisional; Region: PRK09272 644801005032 Predicted metal-binding protein [General function prediction only]; Region: COG3019 644801005033 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 644801005034 metal-binding site [ion binding] 644801005035 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 644801005036 metal-binding site [ion binding] 644801005037 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 644801005038 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 644801005039 metal-binding site [ion binding] 644801005040 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644801005041 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 644801005042 motif II; other site 644801005043 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 644801005044 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 644801005045 active site 644801005046 phosphorylation site [posttranslational modification] 644801005047 intermolecular recognition site; other site 644801005048 dimerization interface [polypeptide binding]; other site 644801005049 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 644801005050 DNA binding site [nucleotide binding] 644801005051 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 644801005052 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 644801005053 dimerization interface [polypeptide binding]; other site 644801005054 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 644801005055 dimer interface [polypeptide binding]; other site 644801005056 phosphorylation site [posttranslational modification] 644801005057 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 644801005058 ATP binding site [chemical binding]; other site 644801005059 G-X-G motif; other site 644801005060 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 644801005061 sensor protein QseC; Provisional; Region: PRK10337 644801005062 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 644801005063 dimer interface [polypeptide binding]; other site 644801005064 phosphorylation site [posttranslational modification] 644801005065 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 644801005066 ATP binding site [chemical binding]; other site 644801005067 Mg2+ binding site [ion binding]; other site 644801005068 G-X-G motif; other site 644801005069 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 644801005070 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 644801005071 active site 644801005072 phosphorylation site [posttranslational modification] 644801005073 intermolecular recognition site; other site 644801005074 dimerization interface [polypeptide binding]; other site 644801005075 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 644801005076 DNA binding site [nucleotide binding] 644801005077 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 644801005078 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 644801005079 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 644801005080 DsbD alpha interface [polypeptide binding]; other site 644801005081 catalytic residues [active] 644801005082 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 644801005083 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644801005084 catalytic residues [active] 644801005085 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 644801005086 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 644801005087 dimerization domain [polypeptide binding]; other site 644801005088 dimer interface [polypeptide binding]; other site 644801005089 catalytic residues [active] 644801005090 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 644801005091 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 644801005092 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801005093 Coenzyme A binding pocket [chemical binding]; other site 644801005094 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 644801005095 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 644801005096 putative acyl-acceptor binding pocket; other site 644801005097 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 644801005098 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 644801005099 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 644801005100 Walker A/P-loop; other site 644801005101 ATP binding site [chemical binding]; other site 644801005102 Q-loop/lid; other site 644801005103 ABC transporter signature motif; other site 644801005104 Walker B; other site 644801005105 D-loop; other site 644801005106 H-loop/switch region; other site 644801005107 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 644801005108 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 644801005109 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 644801005110 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 644801005111 DNA-binding site [nucleotide binding]; DNA binding site 644801005112 RNA-binding motif; other site 644801005113 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 644801005114 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 644801005115 S-adenosylmethionine binding site [chemical binding]; other site 644801005116 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 644801005117 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 644801005118 metal binding site [ion binding]; metal-binding site 644801005119 dimer interface [polypeptide binding]; other site 644801005120 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 644801005121 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 644801005122 putative ATP binding site [chemical binding]; other site 644801005123 putative substrate interface [chemical binding]; other site 644801005124 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 644801005125 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 644801005126 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 644801005127 Protein of unknown function, DUF482; Region: DUF482; pfam04339 644801005128 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; cl00197 644801005129 active site 644801005130 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801005131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801005132 LysR substrate binding domain; Region: LysR_substrate; pfam03466 644801005133 dimerization interface [polypeptide binding]; other site 644801005134 helicase 45; Provisional; Region: PTZ00424 644801005135 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 644801005136 ATP binding site [chemical binding]; other site 644801005137 Mg++ binding site [ion binding]; other site 644801005138 motif III; other site 644801005139 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 644801005140 nucleotide binding region [chemical binding]; other site 644801005141 ATP-binding site [chemical binding]; other site 644801005142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801005143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801005144 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 644801005145 dimerization interface [polypeptide binding]; other site 644801005146 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 644801005147 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644801005148 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 644801005149 Uncharacterized conserved protein [Function unknown]; Region: COG4121 644801005150 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 644801005151 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 644801005152 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 644801005153 dimerization interface [polypeptide binding]; other site 644801005154 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 644801005155 dimer interface [polypeptide binding]; other site 644801005156 phosphorylation site [posttranslational modification] 644801005157 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 644801005158 ATP binding site [chemical binding]; other site 644801005159 Mg2+ binding site [ion binding]; other site 644801005160 G-X-G motif; other site 644801005161 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 644801005162 active site 644801005163 phosphorylation site [posttranslational modification] 644801005164 intermolecular recognition site; other site 644801005165 dimerization interface [polypeptide binding]; other site 644801005166 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 644801005167 putative binding surface; other site 644801005168 active site 644801005169 Predicted membrane protein [Function unknown]; Region: COG2860 644801005170 UPF0126 domain; Region: UPF0126; pfam03458 644801005171 UPF0126 domain; Region: UPF0126; pfam03458 644801005172 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 644801005173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801005174 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 644801005175 putative dimerization interface [polypeptide binding]; other site 644801005176 cysteine synthase B; Region: cysM; TIGR01138 644801005177 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 644801005178 dimer interface [polypeptide binding]; other site 644801005179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801005180 catalytic residue [active] 644801005181 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 644801005182 TRAM domain; Region: TRAM; pfam01938 644801005183 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 644801005184 HD domain; Region: HD_4; pfam13328 644801005185 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 644801005186 synthetase active site [active] 644801005187 NTP binding site [chemical binding]; other site 644801005188 metal binding site [ion binding]; metal-binding site 644801005189 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 644801005190 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 644801005191 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 644801005192 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 644801005193 homodimer interface [polypeptide binding]; other site 644801005194 metal binding site [ion binding]; metal-binding site 644801005195 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 644801005196 homodimer interface [polypeptide binding]; other site 644801005197 active site 644801005198 putative chemical substrate binding site [chemical binding]; other site 644801005199 metal binding site [ion binding]; metal-binding site 644801005200 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 644801005201 Erythromycin esterase; Region: Erythro_esteras; pfam05139 644801005202 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 644801005203 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644801005204 putative active site [active] 644801005205 putative metal binding site [ion binding]; other site 644801005206 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 644801005207 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 644801005208 ATP binding site [chemical binding]; other site 644801005209 putative Mg++ binding site [ion binding]; other site 644801005210 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 644801005211 nucleotide binding region [chemical binding]; other site 644801005212 ATP-binding site [chemical binding]; other site 644801005213 DEAD/H associated; Region: DEAD_assoc; pfam08494 644801005214 ATP-dependent DNA ligase; Validated; Region: PRK09247 644801005215 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 644801005216 active site 644801005217 DNA binding site [nucleotide binding] 644801005218 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 644801005219 DNA binding site [nucleotide binding] 644801005220 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 644801005221 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644801005222 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 644801005223 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 644801005224 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 644801005225 ATP binding site [chemical binding]; other site 644801005226 putative Mg++ binding site [ion binding]; other site 644801005227 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 644801005228 nucleotide binding region [chemical binding]; other site 644801005229 ATP-binding site [chemical binding]; other site 644801005230 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 644801005231 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 644801005232 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 644801005233 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 644801005234 ATP binding site [chemical binding]; other site 644801005235 putative Mg++ binding site [ion binding]; other site 644801005236 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 644801005237 nucleotide binding region [chemical binding]; other site 644801005238 ATP-binding site [chemical binding]; other site 644801005239 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 644801005240 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 644801005241 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 644801005242 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 644801005243 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 644801005244 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 644801005245 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 644801005246 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 644801005247 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 644801005248 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 644801005249 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 644801005250 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 644801005251 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 644801005252 catalytic loop [active] 644801005253 iron binding site [ion binding]; other site 644801005254 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 644801005255 FAD binding pocket [chemical binding]; other site 644801005256 FAD binding motif [chemical binding]; other site 644801005257 phosphate binding motif [ion binding]; other site 644801005258 beta-alpha-beta structure motif; other site 644801005259 NAD binding pocket [chemical binding]; other site 644801005260 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 644801005261 ApbE family; Region: ApbE; pfam02424 644801005262 Protein of unknown function (DUF539); Region: DUF539; cl01129 644801005263 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 644801005264 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644801005265 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801005266 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644801005267 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 644801005268 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 644801005269 active site 644801005270 catalytic site [active] 644801005271 metal binding site [ion binding]; metal-binding site 644801005272 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 644801005273 PilZ domain; Region: PilZ; pfam07238 644801005274 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 644801005275 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644801005276 FtsX-like permease family; Region: FtsX; pfam02687 644801005277 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 644801005278 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644801005279 Walker A/P-loop; other site 644801005280 ATP binding site [chemical binding]; other site 644801005281 Q-loop/lid; other site 644801005282 ABC transporter signature motif; other site 644801005283 Walker B; other site 644801005284 D-loop; other site 644801005285 H-loop/switch region; other site 644801005286 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 644801005287 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644801005288 FtsX-like permease family; Region: FtsX; pfam02687 644801005289 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 644801005290 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 644801005291 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 644801005292 Competence protein; Region: Competence; pfam03772 644801005293 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 644801005294 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 644801005295 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 644801005296 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 644801005297 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 644801005298 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 644801005299 Uncharacterized conserved protein [Function unknown]; Region: COG2835 644801005300 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 644801005301 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 644801005302 Ligand binding site; other site 644801005303 oligomer interface; other site 644801005304 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 644801005305 Low molecular weight phosphatase family; Region: LMWPc; cd00115 644801005306 active site 644801005307 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 644801005308 FAD binding domain; Region: FAD_binding_4; pfam01565 644801005309 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 644801005310 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 644801005311 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 644801005312 homodimer interface [polypeptide binding]; other site 644801005313 oligonucleotide binding site [chemical binding]; other site 644801005314 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 644801005315 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 644801005316 RNA binding surface [nucleotide binding]; other site 644801005317 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 644801005318 active site 644801005319 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 644801005320 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 644801005321 motif II; other site 644801005322 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 644801005323 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 644801005324 tandem repeat interface [polypeptide binding]; other site 644801005325 oligomer interface [polypeptide binding]; other site 644801005326 active site residues [active] 644801005327 Maf-like protein; Region: Maf; pfam02545 644801005328 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 644801005329 active site 644801005330 dimer interface [polypeptide binding]; other site 644801005331 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 644801005332 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 644801005333 putative phosphate acyltransferase; Provisional; Region: PRK05331 644801005334 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 644801005335 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 644801005336 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 644801005337 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 644801005338 NAD(P) binding site [chemical binding]; other site 644801005339 homotetramer interface [polypeptide binding]; other site 644801005340 homodimer interface [polypeptide binding]; other site 644801005341 active site 644801005342 acyl carrier protein; Provisional; Region: acpP; PRK00982 644801005343 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 644801005344 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 644801005345 dimer interface [polypeptide binding]; other site 644801005346 active site 644801005347 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 644801005348 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 644801005349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801005350 catalytic residue [active] 644801005351 YceG-like family; Region: YceG; pfam02618 644801005352 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 644801005353 dimerization interface [polypeptide binding]; other site 644801005354 thymidylate kinase; Validated; Region: tmk; PRK00698 644801005355 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 644801005356 TMP-binding site; other site 644801005357 ATP-binding site [chemical binding]; other site 644801005358 DNA polymerase III subunit delta'; Validated; Region: PRK05707 644801005359 PilZ domain; Region: PilZ; cl01260 644801005360 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 644801005361 active site 644801005362 aromatic amino acid transporter; Provisional; Region: PRK10238 644801005363 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 644801005364 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 644801005365 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644801005366 catalytic residue [active] 644801005367 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801005368 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801005369 WHG domain; Region: WHG; pfam13305 644801005370 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644801005371 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 644801005372 FeS/SAM binding site; other site 644801005373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 644801005374 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 644801005375 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 644801005376 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644801005377 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 644801005378 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 644801005379 Ligand binding site [chemical binding]; other site 644801005380 Electron transfer flavoprotein domain; Region: ETF; pfam01012 644801005381 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 644801005382 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 644801005383 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 644801005384 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 644801005385 substrate binding pocket [chemical binding]; other site 644801005386 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 644801005387 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 644801005388 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801005389 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801005390 ligand binding site [chemical binding]; other site 644801005391 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 644801005392 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801005393 DNA-binding site [nucleotide binding]; DNA binding site 644801005394 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 644801005395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801005396 homodimer interface [polypeptide binding]; other site 644801005397 catalytic residue [active] 644801005398 CHASE4 domain; Region: CHASE4; pfam05228 644801005399 PAS domain S-box; Region: sensory_box; TIGR00229 644801005400 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 644801005401 putative active site [active] 644801005402 heme pocket [chemical binding]; other site 644801005403 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801005404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801005405 metal binding site [ion binding]; metal-binding site 644801005406 active site 644801005407 I-site; other site 644801005408 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 644801005409 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 644801005410 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 644801005411 active site 644801005412 dimer interface [polypeptide binding]; other site 644801005413 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 644801005414 Prostaglandin dehydrogenases; Region: PGDH; cd05288 644801005415 NAD(P) binding site [chemical binding]; other site 644801005416 substrate binding site [chemical binding]; other site 644801005417 dimer interface [polypeptide binding]; other site 644801005418 short chain dehydrogenase; Provisional; Region: PRK06172 644801005419 classical (c) SDRs; Region: SDR_c; cd05233 644801005420 NAD(P) binding site [chemical binding]; other site 644801005421 active site 644801005422 benzoate transporter; Region: benE; TIGR00843 644801005423 Benzoate membrane transport protein; Region: BenE; pfam03594 644801005424 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 644801005425 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 644801005426 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 644801005427 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 644801005428 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 644801005429 MgtE intracellular N domain; Region: MgtE_N; smart00924 644801005430 FliG C-terminal domain; Region: FliG_C; pfam01706 644801005431 flagellar assembly protein H; Validated; Region: fliH; PRK05687 644801005432 Flagellar assembly protein FliH; Region: FliH; pfam02108 644801005433 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 644801005434 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 644801005435 Walker A motif/ATP binding site; other site 644801005436 Walker B motif; other site 644801005437 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 644801005438 Flagellar FliJ protein; Region: FliJ; pfam02050 644801005439 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 644801005440 anti sigma factor interaction site; other site 644801005441 regulatory phosphorylation site [posttranslational modification]; other site 644801005442 Response regulator receiver domain; Region: Response_reg; pfam00072 644801005443 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 644801005444 active site 644801005445 phosphorylation site [posttranslational modification] 644801005446 intermolecular recognition site; other site 644801005447 dimerization interface [polypeptide binding]; other site 644801005448 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 644801005449 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644801005450 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 644801005451 putative binding surface; other site 644801005452 active site 644801005453 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 644801005454 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 644801005455 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 644801005456 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 644801005457 flagellar motor switch protein; Validated; Region: fliN; PRK05698 644801005458 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 644801005459 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 644801005460 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 644801005461 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 644801005462 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 644801005463 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 644801005464 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 644801005465 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 644801005466 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 644801005467 E-class dimer interface [polypeptide binding]; other site 644801005468 P-class dimer interface [polypeptide binding]; other site 644801005469 active site 644801005470 Cu2+ binding site [ion binding]; other site 644801005471 Zn2+ binding site [ion binding]; other site 644801005472 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 644801005473 FHIPEP family; Region: FHIPEP; pfam00771 644801005474 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 644801005475 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 644801005476 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 644801005477 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 644801005478 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 644801005479 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 644801005480 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801005481 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644801005482 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 644801005483 DNA binding residues [nucleotide binding] 644801005484 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644801005485 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 644801005486 active site 644801005487 phosphorylation site [posttranslational modification] 644801005488 intermolecular recognition site; other site 644801005489 dimerization interface [polypeptide binding]; other site 644801005490 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 644801005491 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 644801005492 putative binding surface; other site 644801005493 active site 644801005494 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 644801005495 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644801005496 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 644801005497 ATP binding site [chemical binding]; other site 644801005498 Mg2+ binding site [ion binding]; other site 644801005499 G-X-G motif; other site 644801005500 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 644801005501 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 644801005502 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 644801005503 active site 644801005504 phosphorylation site [posttranslational modification] 644801005505 intermolecular recognition site; other site 644801005506 dimerization interface [polypeptide binding]; other site 644801005507 CheB methylesterase; Region: CheB_methylest; pfam01339 644801005508 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 644801005509 flagellar motor protein; Reviewed; Region: motC; PRK09109 644801005510 flagellar motor protein MotD; Reviewed; Region: PRK09038 644801005511 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 644801005512 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801005513 ligand binding site [chemical binding]; other site 644801005514 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644801005515 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 644801005516 P-loop; other site 644801005517 Magnesium ion binding site [ion binding]; other site 644801005518 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 644801005519 Magnesium ion binding site [ion binding]; other site 644801005520 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 644801005521 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 644801005522 putative CheA interaction surface; other site 644801005523 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 644801005524 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 644801005525 active site residue [active] 644801005526 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 644801005527 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 644801005528 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 644801005529 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 644801005530 Walker A/P-loop; other site 644801005531 ATP binding site [chemical binding]; other site 644801005532 Q-loop/lid; other site 644801005533 ABC transporter signature motif; other site 644801005534 Walker B; other site 644801005535 D-loop; other site 644801005536 H-loop/switch region; other site 644801005537 heme exporter protein CcmB; Region: ccmB; TIGR01190 644801005538 heme exporter protein CcmC; Region: ccmC; TIGR01191 644801005539 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 644801005540 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 644801005541 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 644801005542 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 644801005543 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644801005544 catalytic residues [active] 644801005545 central insert; other site 644801005546 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 644801005547 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 644801005548 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 644801005549 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 644801005550 TPR motif; other site 644801005551 binding surface 644801005552 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 644801005553 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801005554 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 644801005555 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 644801005556 Walker A motif; other site 644801005557 ATP binding site [chemical binding]; other site 644801005558 Walker B motif; other site 644801005559 arginine finger; other site 644801005560 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801005561 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 644801005562 dimer interface [polypeptide binding]; other site 644801005563 phosphorylation site [posttranslational modification] 644801005564 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 644801005565 ATP binding site [chemical binding]; other site 644801005566 Mg2+ binding site [ion binding]; other site 644801005567 G-X-G motif; other site 644801005568 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801005569 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 644801005570 active site 644801005571 phosphorylation site [posttranslational modification] 644801005572 intermolecular recognition site; other site 644801005573 dimerization interface [polypeptide binding]; other site 644801005574 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 644801005575 Walker A motif; other site 644801005576 ATP binding site [chemical binding]; other site 644801005577 Walker B motif; other site 644801005578 arginine finger; other site 644801005579 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801005580 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 644801005581 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 644801005582 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 644801005583 heat shock protein HtpX; Provisional; Region: PRK05457 644801005584 aminotransferase AlaT; Validated; Region: PRK09265 644801005585 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 644801005586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801005587 homodimer interface [polypeptide binding]; other site 644801005588 catalytic residue [active] 644801005589 methionine sulfoxide reductase B; Provisional; Region: PRK00222 644801005590 SelR domain; Region: SelR; pfam01641 644801005591 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 644801005592 catalytic residues [active] 644801005593 dimer interface [polypeptide binding]; other site 644801005594 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 644801005595 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 644801005596 Walker A motif; other site 644801005597 ATP binding site [chemical binding]; other site 644801005598 Walker B motif; other site 644801005599 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 644801005600 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 644801005601 C-terminal domain interface [polypeptide binding]; other site 644801005602 GSH binding site (G-site) [chemical binding]; other site 644801005603 dimer interface [polypeptide binding]; other site 644801005604 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 644801005605 N-terminal domain interface [polypeptide binding]; other site 644801005606 dimer interface [polypeptide binding]; other site 644801005607 substrate binding pocket (H-site) [chemical binding]; other site 644801005608 Uncharacterized family 4; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_4; cd10161 644801005609 putative homodimer interface [polypeptide binding]; other site 644801005610 putative homotetramer interface [polypeptide binding]; other site 644801005611 putative metal binding site [ion binding]; other site 644801005612 putative homodimer-homodimer interface [polypeptide binding]; other site 644801005613 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 644801005614 dimerization interface [polypeptide binding]; other site 644801005615 putative DNA binding site [nucleotide binding]; other site 644801005616 putative Zn2+ binding site [ion binding]; other site 644801005617 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 644801005618 Predicted transporter component [General function prediction only]; Region: COG2391 644801005619 Predicted transporter component [General function prediction only]; Region: COG2391 644801005620 Sulphur transport; Region: Sulf_transp; pfam04143 644801005621 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 644801005622 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 644801005623 active site residue [active] 644801005624 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 644801005625 high affinity sulphate transporter 1; Region: sulP; TIGR00815 644801005626 Sulfate transporter family; Region: Sulfate_transp; pfam00916 644801005627 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 644801005628 Putative phosphatase (DUF442); Region: DUF442; cl17385 644801005629 hydroxyglutarate oxidase; Provisional; Region: PRK11728 644801005630 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 644801005631 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 644801005632 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644801005633 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644801005634 Walker A/P-loop; other site 644801005635 ATP binding site [chemical binding]; other site 644801005636 Q-loop/lid; other site 644801005637 ABC transporter signature motif; other site 644801005638 Walker B; other site 644801005639 D-loop; other site 644801005640 H-loop/switch region; other site 644801005641 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 644801005642 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644801005643 FtsX-like permease family; Region: FtsX; pfam02687 644801005644 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644801005645 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801005646 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 644801005647 ZIP Zinc transporter; Region: Zip; pfam02535 644801005648 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801005649 ligand binding site [chemical binding]; other site 644801005650 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644801005651 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 644801005652 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644801005653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 644801005654 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 644801005655 elongation factor P; Validated; Region: PRK00529 644801005656 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 644801005657 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 644801005658 RNA binding site [nucleotide binding]; other site 644801005659 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 644801005660 RNA binding site [nucleotide binding]; other site 644801005661 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644801005662 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 644801005663 transmembrane helices; other site 644801005664 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 644801005665 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 644801005666 S-adenosylmethionine binding site [chemical binding]; other site 644801005667 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801005668 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801005669 dimer interface [polypeptide binding]; other site 644801005670 putative CheW interface [polypeptide binding]; other site 644801005671 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 644801005672 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 644801005673 ATP binding site [chemical binding]; other site 644801005674 Mg++ binding site [ion binding]; other site 644801005675 motif III; other site 644801005676 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 644801005677 nucleotide binding region [chemical binding]; other site 644801005678 ATP-binding site [chemical binding]; other site 644801005679 DbpA RNA binding domain; Region: DbpA; pfam03880 644801005680 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 644801005681 IHF dimer interface [polypeptide binding]; other site 644801005682 IHF - DNA interface [nucleotide binding]; other site 644801005683 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 644801005684 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 644801005685 Chain length determinant protein; Region: Wzz; pfam02706 644801005686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 644801005687 Beta-Casp domain; Region: Beta-Casp; smart01027 644801005688 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 644801005689 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 644801005690 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 644801005691 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 644801005692 NAD(P) binding site [chemical binding]; other site 644801005693 homodimer interface [polypeptide binding]; other site 644801005694 substrate binding site [chemical binding]; other site 644801005695 active site 644801005696 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 644801005697 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 644801005698 inhibitor-cofactor binding pocket; inhibition site 644801005699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801005700 catalytic residue [active] 644801005701 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 644801005702 ligand binding site; other site 644801005703 tetramer interface; other site 644801005704 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 644801005705 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 644801005706 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 644801005707 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 644801005708 pseudaminic acid synthase; Region: PseI; TIGR03586 644801005709 NeuB family; Region: NeuB; pfam03102 644801005710 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 644801005711 NeuB binding interface [polypeptide binding]; other site 644801005712 putative substrate binding site [chemical binding]; other site 644801005713 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 644801005714 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 644801005715 NADP-binding site; other site 644801005716 homotetramer interface [polypeptide binding]; other site 644801005717 substrate binding site [chemical binding]; other site 644801005718 homodimer interface [polypeptide binding]; other site 644801005719 active site 644801005720 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 644801005721 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 644801005722 NADP binding site [chemical binding]; other site 644801005723 active site 644801005724 putative substrate binding site [chemical binding]; other site 644801005725 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 644801005726 active site 644801005727 GDP-Mannose binding site [chemical binding]; other site 644801005728 dimer interface [polypeptide binding]; other site 644801005729 modified nudix motif 644801005730 metal binding site [ion binding]; metal-binding site 644801005731 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 644801005732 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 644801005733 Substrate binding site; other site 644801005734 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 644801005735 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 644801005736 metal-binding site 644801005737 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644801005738 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 644801005739 putative NAD(P) binding site [chemical binding]; other site 644801005740 active site 644801005741 putative substrate binding site [chemical binding]; other site 644801005742 Bacterial sugar transferase; Region: Bac_transf; pfam02397 644801005743 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 644801005744 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 644801005745 NAD(P) binding site [chemical binding]; other site 644801005746 homodimer interface [polypeptide binding]; other site 644801005747 substrate binding site [chemical binding]; other site 644801005748 active site 644801005749 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 644801005750 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 644801005751 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 644801005752 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 644801005753 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 644801005754 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 644801005755 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 644801005756 dimer interface [polypeptide binding]; other site 644801005757 active site 644801005758 polysaccharide export protein Wza; Provisional; Region: PRK15078 644801005759 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 644801005760 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 644801005761 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 644801005762 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 644801005763 Probable Catalytic site; other site 644801005764 metal-binding site 644801005765 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 644801005766 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 644801005767 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 644801005768 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 644801005769 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 644801005770 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 644801005771 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 644801005772 tyrosine kinase; Provisional; Region: PRK11519 644801005773 Chain length determinant protein; Region: Wzz; pfam02706 644801005774 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 644801005775 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 644801005776 Low molecular weight phosphatase family; Region: LMWPc; cd00115 644801005777 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 644801005778 active site 644801005779 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 644801005780 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 644801005781 lipid kinase; Reviewed; Region: PRK13054 644801005782 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 644801005783 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 644801005784 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801005785 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 644801005786 active site 644801005787 phosphorylation site [posttranslational modification] 644801005788 intermolecular recognition site; other site 644801005789 dimerization interface [polypeptide binding]; other site 644801005790 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 644801005791 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 644801005792 MOSC domain; Region: MOSC; pfam03473 644801005793 lytic murein transglycosylase; Provisional; Region: PRK11619 644801005794 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 644801005795 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644801005796 catalytic residue [active] 644801005797 ABC transporter ATPase component; Reviewed; Region: PRK11147 644801005798 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801005799 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801005800 ABC transporter; Region: ABC_tran_2; pfam12848 644801005801 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801005802 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 644801005803 Ligand Binding Site [chemical binding]; other site 644801005804 Vpu protein; Region: Vpu; pfam00558 644801005805 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 644801005806 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 644801005807 putative active site [active] 644801005808 putative dimer interface [polypeptide binding]; other site 644801005809 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 644801005810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 644801005811 Uncharacterized conserved protein [Function unknown]; Region: COG3791 644801005812 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644801005813 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 644801005814 Walker A motif; other site 644801005815 ATP binding site [chemical binding]; other site 644801005816 Walker B motif; other site 644801005817 arginine finger; other site 644801005818 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 644801005819 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 644801005820 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 644801005821 dimer interface [polypeptide binding]; other site 644801005822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801005823 catalytic residue [active] 644801005824 EamA-like transporter family; Region: EamA; pfam00892 644801005825 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 644801005826 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 644801005827 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 644801005828 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 644801005829 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 644801005830 putative C-terminal domain interface [polypeptide binding]; other site 644801005831 putative GSH binding site (G-site) [chemical binding]; other site 644801005832 putative dimer interface [polypeptide binding]; other site 644801005833 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 644801005834 putative N-terminal domain interface [polypeptide binding]; other site 644801005835 putative dimer interface [polypeptide binding]; other site 644801005836 putative substrate binding pocket (H-site) [chemical binding]; other site 644801005837 Uncharacterized conserved protein [Function unknown]; Region: COG3148 644801005838 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 644801005839 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801005840 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801005841 VCBS repeat; Region: VCBS_repeat; TIGR01965 644801005842 VCBS repeat; Region: VCBS_repeat; TIGR01965 644801005843 VCBS repeat; Region: VCBS_repeat; TIGR01965 644801005844 VCBS repeat; Region: VCBS_repeat; TIGR01965 644801005845 VCBS repeat; Region: VCBS_repeat; TIGR01965 644801005846 VCBS repeat; Region: VCBS_repeat; TIGR01965 644801005847 VCBS repeat; Region: VCBS_repeat; TIGR01965 644801005848 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 644801005849 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 644801005850 dimerization interface [polypeptide binding]; other site 644801005851 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801005852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801005853 metal binding site [ion binding]; metal-binding site 644801005854 active site 644801005855 I-site; other site 644801005856 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 644801005857 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 644801005858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 644801005859 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 644801005860 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 644801005861 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 644801005862 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 644801005863 ATP binding site [chemical binding]; other site 644801005864 putative Mg++ binding site [ion binding]; other site 644801005865 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 644801005866 nucleotide binding region [chemical binding]; other site 644801005867 ATP-binding site [chemical binding]; other site 644801005868 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 644801005869 HRDC domain; Region: HRDC; pfam00570 644801005870 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644801005871 MarR family; Region: MarR_2; pfam12802 644801005872 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 644801005873 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 644801005874 active site 644801005875 nucleophile elbow; other site 644801005876 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644801005877 Surface antigen; Region: Bac_surface_Ag; pfam01103 644801005878 Rdx family; Region: Rdx; cl01407 644801005879 EamA-like transporter family; Region: EamA; pfam00892 644801005880 Cupin domain; Region: Cupin_2; cl17218 644801005881 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801005882 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801005883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801005884 MASE2 domain; Region: MASE2; pfam05230 644801005885 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 644801005886 cyclase homology domain; Region: CHD; cd07302 644801005887 nucleotidyl binding site; other site 644801005888 metal binding site [ion binding]; metal-binding site 644801005889 dimer interface [polypeptide binding]; other site 644801005890 Protein of unknown function (DUF962); Region: DUF962; cl01879 644801005891 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 644801005892 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644801005893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801005894 Protein of unknown function (DUF808); Region: DUF808; pfam05661 644801005895 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 644801005896 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 644801005897 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 644801005898 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 644801005899 putative FMN binding site [chemical binding]; other site 644801005900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801005901 HAMP domain; Region: HAMP; pfam00672 644801005902 dimerization interface [polypeptide binding]; other site 644801005903 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 644801005904 phosphorylation site [posttranslational modification] 644801005905 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 644801005906 ATP binding site [chemical binding]; other site 644801005907 G-X-G motif; other site 644801005908 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 644801005909 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 644801005910 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 644801005911 active site 644801005912 phosphorylation site [posttranslational modification] 644801005913 intermolecular recognition site; other site 644801005914 dimerization interface [polypeptide binding]; other site 644801005915 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 644801005916 DNA binding site [nucleotide binding] 644801005917 YciI-like protein; Reviewed; Region: PRK11370 644801005918 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 644801005919 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 644801005920 active site 644801005921 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 644801005922 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 644801005923 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 644801005924 active site 644801005925 HIGH motif; other site 644801005926 dimer interface [polypeptide binding]; other site 644801005927 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644801005928 active site 644801005929 KMSKS motif; other site 644801005930 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 644801005931 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 644801005932 phosphogluconate dehydratase; Validated; Region: PRK09054 644801005933 6-phosphogluconate dehydratase; Region: edd; TIGR01196 644801005934 glucokinase, proteobacterial type; Region: glk; TIGR00749 644801005935 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 644801005936 nucleotide binding site [chemical binding]; other site 644801005937 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 644801005938 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 644801005939 active site 644801005940 phosphorylation site [posttranslational modification] 644801005941 intermolecular recognition site; other site 644801005942 dimerization interface [polypeptide binding]; other site 644801005943 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 644801005944 DNA binding site [nucleotide binding] 644801005945 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 644801005946 dimerization interface [polypeptide binding]; other site 644801005947 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 644801005948 ATP binding site [chemical binding]; other site 644801005949 Mg2+ binding site [ion binding]; other site 644801005950 G-X-G motif; other site 644801005951 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 644801005952 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 644801005953 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801005954 dimer interface [polypeptide binding]; other site 644801005955 conserved gate region; other site 644801005956 putative PBP binding loops; other site 644801005957 ABC-ATPase subunit interface; other site 644801005958 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 644801005959 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801005960 dimer interface [polypeptide binding]; other site 644801005961 conserved gate region; other site 644801005962 putative PBP binding loops; other site 644801005963 ABC-ATPase subunit interface; other site 644801005964 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 644801005965 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 644801005966 Walker A/P-loop; other site 644801005967 ATP binding site [chemical binding]; other site 644801005968 Q-loop/lid; other site 644801005969 ABC transporter signature motif; other site 644801005970 Walker B; other site 644801005971 D-loop; other site 644801005972 H-loop/switch region; other site 644801005973 TOBE domain; Region: TOBE_2; pfam08402 644801005974 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 644801005975 trimer interface; other site 644801005976 sugar binding site [chemical binding]; other site 644801005977 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644801005978 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 644801005979 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 644801005980 Tetramer interface [polypeptide binding]; other site 644801005981 active site 644801005982 FMN-binding site [chemical binding]; other site 644801005983 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 644801005984 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644801005985 putative substrate translocation pore; other site 644801005986 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 644801005987 Cupin domain; Region: Cupin_2; cl17218 644801005988 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 644801005989 catalytic core [active] 644801005990 AlkA N-terminal domain; Region: AlkA_N; pfam06029 644801005991 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 644801005992 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 644801005993 minor groove reading motif; other site 644801005994 helix-hairpin-helix signature motif; other site 644801005995 substrate binding pocket [chemical binding]; other site 644801005996 active site 644801005997 spermidine synthase; Provisional; Region: PRK00811 644801005998 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 644801005999 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 644801006000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801006001 LysR family transcriptional regulator; Provisional; Region: PRK14997 644801006002 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 644801006003 putative effector binding pocket; other site 644801006004 dimerization interface [polypeptide binding]; other site 644801006005 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644801006006 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 644801006007 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 644801006008 Chromate transporter; Region: Chromate_transp; pfam02417 644801006009 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 644801006010 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 644801006011 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 644801006012 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 644801006013 active site 644801006014 metal binding site [ion binding]; metal-binding site 644801006015 Rhomboid family; Region: Rhomboid; pfam01694 644801006016 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 644801006017 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 644801006018 aminopeptidase N; Provisional; Region: pepN; PRK14015 644801006019 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 644801006020 active site 644801006021 Zn binding site [ion binding]; other site 644801006022 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 644801006023 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644801006024 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 644801006025 active site 644801006026 SAM binding site [chemical binding]; other site 644801006027 homodimer interface [polypeptide binding]; other site 644801006028 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 644801006029 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 644801006030 [4Fe-4S] binding site [ion binding]; other site 644801006031 molybdopterin cofactor binding site; other site 644801006032 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 644801006033 molybdopterin cofactor binding site; other site 644801006034 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 644801006035 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 644801006036 [2Fe-2S] cluster binding site [ion binding]; other site 644801006037 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 644801006038 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801006039 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 644801006040 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 644801006041 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 644801006042 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 644801006043 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 644801006044 active site 644801006045 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 644801006046 Catalytic domain of Protein Kinases; Region: PKc; cd00180 644801006047 active site 644801006048 ATP binding site [chemical binding]; other site 644801006049 substrate binding site [chemical binding]; other site 644801006050 activation loop (A-loop); other site 644801006051 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 644801006052 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 644801006053 putative substrate translocation pore; other site 644801006054 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 644801006055 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 644801006056 putative substrate binding site [chemical binding]; other site 644801006057 putative ATP binding site [chemical binding]; other site 644801006058 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 644801006059 active site 644801006060 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 644801006061 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 644801006062 active site 644801006063 phosphorylation site [posttranslational modification] 644801006064 intermolecular recognition site; other site 644801006065 dimerization interface [polypeptide binding]; other site 644801006066 ANTAR domain; Region: ANTAR; pfam03861 644801006067 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644801006068 NMT1-like family; Region: NMT1_2; pfam13379 644801006069 Oxygen tolerance; Region: BatD; pfam13584 644801006070 von Willebrand factor type A domain; Region: VWA_2; pfam13519 644801006071 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 644801006072 TPR motif; other site 644801006073 binding surface 644801006074 TPR repeat; Region: TPR_11; pfam13414 644801006075 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 644801006076 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 644801006077 metal ion-dependent adhesion site (MIDAS); other site 644801006078 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 644801006079 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 644801006080 Protein of unknown function DUF58; Region: DUF58; pfam01882 644801006081 MoxR-like ATPases [General function prediction only]; Region: COG0714 644801006082 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 644801006083 Walker A motif; other site 644801006084 ATP binding site [chemical binding]; other site 644801006085 Walker B motif; other site 644801006086 arginine finger; other site 644801006087 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 644801006088 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 644801006089 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 644801006090 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 644801006091 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 644801006092 quinone interaction residues [chemical binding]; other site 644801006093 active site 644801006094 catalytic residues [active] 644801006095 FMN binding site [chemical binding]; other site 644801006096 substrate binding site [chemical binding]; other site 644801006097 Ribosome modulation factor [Translation, ribosomal structure and biogenesis]; Region: Rmf; COG3130 644801006098 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 644801006099 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 644801006100 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 644801006101 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 644801006102 S-adenosylmethionine binding site [chemical binding]; other site 644801006103 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 644801006104 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 644801006105 hypothetical protein; Provisional; Region: PRK11702 644801006106 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 644801006107 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644801006108 Zn2+ binding site [ion binding]; other site 644801006109 Mg2+ binding site [ion binding]; other site 644801006110 Predicted membrane protein [Function unknown]; Region: COG5393 644801006111 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 644801006112 outer membrane porin, OprD family; Region: OprD; pfam03573 644801006113 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 644801006114 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 644801006115 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 644801006116 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 644801006117 GTP binding site; other site 644801006118 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 644801006119 Acyltransferase family; Region: Acyl_transf_3; pfam01757 644801006120 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 644801006121 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cl12104 644801006122 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 644801006123 putative active site [active] 644801006124 TPR repeat; Region: TPR_11; pfam13414 644801006125 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 644801006126 binding surface 644801006127 TPR motif; other site 644801006128 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 644801006129 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 644801006130 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 644801006131 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 644801006132 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 644801006133 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 644801006134 active site 644801006135 dimer interface [polypeptide binding]; other site 644801006136 motif 1; other site 644801006137 motif 2; other site 644801006138 motif 3; other site 644801006139 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 644801006140 anticodon binding site; other site 644801006141 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 644801006142 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 644801006143 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 644801006144 Long range pseudoknot; Psest_1970 644801006145 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 644801006146 23S rRNA binding site [nucleotide binding]; other site 644801006147 L21 binding site [polypeptide binding]; other site 644801006148 L13 binding site [polypeptide binding]; other site 644801006149 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 644801006150 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 644801006151 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 644801006152 dimer interface [polypeptide binding]; other site 644801006153 motif 1; other site 644801006154 active site 644801006155 motif 2; other site 644801006156 motif 3; other site 644801006157 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 644801006158 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 644801006159 putative tRNA-binding site [nucleotide binding]; other site 644801006160 B3/4 domain; Region: B3_4; pfam03483 644801006161 tRNA synthetase B5 domain; Region: B5; smart00874 644801006162 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 644801006163 dimer interface [polypeptide binding]; other site 644801006164 motif 1; other site 644801006165 motif 3; other site 644801006166 motif 2; other site 644801006167 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 644801006168 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 644801006169 IHF dimer interface [polypeptide binding]; other site 644801006170 IHF - DNA interface [nucleotide binding]; other site 644801006171 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 644801006172 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644801006173 DNA binding residues [nucleotide binding] 644801006174 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 644801006175 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 644801006176 putative active site [active] 644801006177 putative PHP Thumb interface [polypeptide binding]; other site 644801006178 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 644801006179 generic binding surface I; other site 644801006180 generic binding surface II; other site 644801006181 DNA Polymerase Y-family; Region: PolY_like; cd03468 644801006182 active site 644801006183 DNA binding site [nucleotide binding] 644801006184 Uncharacterized conserved protein [Function unknown]; Region: COG4544 644801006185 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 644801006186 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 644801006187 DNA gyrase subunit A; Validated; Region: PRK05560 644801006188 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 644801006189 CAP-like domain; other site 644801006190 active site 644801006191 primary dimer interface [polypeptide binding]; other site 644801006192 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644801006193 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644801006194 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644801006195 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644801006196 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644801006197 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644801006198 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 644801006199 homodimer interface [polypeptide binding]; other site 644801006200 substrate-cofactor binding pocket; other site 644801006201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801006202 catalytic residue [active] 644801006203 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 644801006204 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 644801006205 Prephenate dehydratase; Region: PDT; pfam00800 644801006206 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 644801006207 putative L-Phe binding site [chemical binding]; other site 644801006208 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 644801006209 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 644801006210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801006211 homodimer interface [polypeptide binding]; other site 644801006212 catalytic residue [active] 644801006213 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 644801006214 prephenate dehydrogenase; Validated; Region: PRK08507 644801006215 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 644801006216 hinge; other site 644801006217 active site 644801006218 cytidylate kinase; Provisional; Region: cmk; PRK00023 644801006219 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 644801006220 CMP-binding site; other site 644801006221 The sites determining sugar specificity; other site 644801006222 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 644801006223 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 644801006224 RNA binding site [nucleotide binding]; other site 644801006225 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 644801006226 RNA binding site [nucleotide binding]; other site 644801006227 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 644801006228 RNA binding site [nucleotide binding]; other site 644801006229 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 644801006230 RNA binding site [nucleotide binding]; other site 644801006231 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 644801006232 RNA binding site [nucleotide binding]; other site 644801006233 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 644801006234 RNA binding site [nucleotide binding]; other site 644801006235 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644801006236 MarR family; Region: MarR_2; pfam12802 644801006237 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 644801006238 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 644801006239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801006240 homodimer interface [polypeptide binding]; other site 644801006241 catalytic residue [active] 644801006242 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 644801006243 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 644801006244 putative C-terminal domain interface [polypeptide binding]; other site 644801006245 putative GSH binding site (G-site) [chemical binding]; other site 644801006246 putative dimer interface [polypeptide binding]; other site 644801006247 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 644801006248 N-terminal domain interface [polypeptide binding]; other site 644801006249 dimer interface [polypeptide binding]; other site 644801006250 substrate binding pocket (H-site) [chemical binding]; other site 644801006251 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 644801006252 homodecamer interface [polypeptide binding]; other site 644801006253 GTP cyclohydrolase I; Provisional; Region: PLN03044 644801006254 active site 644801006255 putative catalytic site residues [active] 644801006256 zinc binding site [ion binding]; other site 644801006257 GTP-CH-I/GFRP interaction surface; other site 644801006258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 644801006259 Smr domain; Region: Smr; pfam01713 644801006260 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 644801006261 Isochorismatase family; Region: Isochorismatase; pfam00857 644801006262 catalytic triad [active] 644801006263 conserved cis-peptide bond; other site 644801006264 HemK family putative methylases; Region: hemK_fam; TIGR00536 644801006265 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 644801006266 S-adenosylmethionine binding site [chemical binding]; other site 644801006267 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 644801006268 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 644801006269 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 644801006270 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 644801006271 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 644801006272 putative active site [active] 644801006273 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 644801006274 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 644801006275 active site 644801006276 intersubunit interface [polypeptide binding]; other site 644801006277 catalytic residue [active] 644801006278 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 644801006279 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 644801006280 RNA binding surface [nucleotide binding]; other site 644801006281 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 644801006282 probable active site [active] 644801006283 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 644801006284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801006285 NAD(P) binding site [chemical binding]; other site 644801006286 active site 644801006287 phosphoglycolate phosphatase; Provisional; Region: PRK13222 644801006288 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 644801006289 motif II; other site 644801006290 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 644801006291 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 644801006292 S-adenosylmethionine binding site [chemical binding]; other site 644801006293 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 644801006294 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 644801006295 active site 644801006296 putative substrate binding pocket [chemical binding]; other site 644801006297 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 644801006298 active site 644801006299 Predicted permease [General function prediction only]; Region: COG2056 644801006300 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 644801006301 Domain of unknown function DUF20; Region: UPF0118; pfam01594 644801006302 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 644801006303 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 644801006304 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 644801006305 tetramer interface [polypeptide binding]; other site 644801006306 active site 644801006307 Mg2+/Mn2+ binding site [ion binding]; other site 644801006308 isocitrate lyase; Region: PLN02892 644801006309 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 644801006310 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 644801006311 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 644801006312 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801006313 Coenzyme A binding pocket [chemical binding]; other site 644801006314 Uncharacterized conserved protein [Function unknown]; Region: COG2850 644801006315 adenylosuccinate lyase; Provisional; Region: PRK09285 644801006316 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 644801006317 tetramer interface [polypeptide binding]; other site 644801006318 active site 644801006319 putative lysogenization regulator; Reviewed; Region: PRK00218 644801006320 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 644801006321 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 644801006322 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 644801006323 nudix motif; other site 644801006324 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 644801006325 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 644801006326 isocitrate dehydrogenase; Validated; Region: PRK07362 644801006327 isocitrate dehydrogenase; Reviewed; Region: PRK07006 644801006328 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 644801006329 DNA-binding site [nucleotide binding]; DNA binding site 644801006330 RNA-binding motif; other site 644801006331 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 644801006332 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 644801006333 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 644801006334 Walker A motif; other site 644801006335 ATP binding site [chemical binding]; other site 644801006336 Walker B motif; other site 644801006337 arginine finger; other site 644801006338 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 644801006339 Walker A motif; other site 644801006340 ATP binding site [chemical binding]; other site 644801006341 Walker B motif; other site 644801006342 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 644801006343 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 644801006344 rRNA binding site [nucleotide binding]; other site 644801006345 predicted 30S ribosome binding site; other site 644801006346 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 644801006347 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 644801006348 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 644801006349 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 644801006350 thioredoxin reductase; Provisional; Region: PRK10262 644801006351 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644801006352 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801006353 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 644801006354 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 644801006355 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 644801006356 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 644801006357 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 644801006358 recombination factor protein RarA; Reviewed; Region: PRK13342 644801006359 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 644801006360 Walker A motif; other site 644801006361 ATP binding site [chemical binding]; other site 644801006362 Walker B motif; other site 644801006363 arginine finger; other site 644801006364 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 644801006365 camphor resistance protein CrcB; Provisional; Region: PRK14234 644801006366 seryl-tRNA synthetase; Provisional; Region: PRK05431 644801006367 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 644801006368 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 644801006369 dimer interface [polypeptide binding]; other site 644801006370 active site 644801006371 motif 1; other site 644801006372 motif 2; other site 644801006373 motif 3; other site 644801006374 siroheme synthase; Provisional; Region: cysG; PRK10637 644801006375 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 644801006376 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 644801006377 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 644801006378 active site 644801006379 SAM binding site [chemical binding]; other site 644801006380 homodimer interface [polypeptide binding]; other site 644801006381 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644801006382 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 644801006383 active site 644801006384 phosphorylation site [posttranslational modification] 644801006385 intermolecular recognition site; other site 644801006386 dimerization interface [polypeptide binding]; other site 644801006387 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 644801006388 DNA binding residues [nucleotide binding] 644801006389 dimerization interface [polypeptide binding]; other site 644801006390 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 644801006391 active site residue [active] 644801006392 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 644801006393 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 644801006394 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 644801006395 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801006396 Walker A/P-loop; other site 644801006397 ATP binding site [chemical binding]; other site 644801006398 Q-loop/lid; other site 644801006399 ABC transporter signature motif; other site 644801006400 Walker B; other site 644801006401 D-loop; other site 644801006402 H-loop/switch region; other site 644801006403 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 644801006404 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 644801006405 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 644801006406 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 644801006407 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 644801006408 Sel1-like repeats; Region: SEL1; smart00671 644801006409 Sel1 repeat; Region: Sel1; cl02723 644801006410 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644801006411 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 644801006412 ligand binding site [chemical binding]; other site 644801006413 Cache domain; Region: Cache_1; pfam02743 644801006414 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 644801006415 dimerization interface [polypeptide binding]; other site 644801006416 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801006417 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801006418 dimer interface [polypeptide binding]; other site 644801006419 putative CheW interface [polypeptide binding]; other site 644801006420 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 644801006421 dimerization interface [polypeptide binding]; other site 644801006422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 644801006423 Histidine kinase; Region: HisKA_3; pfam07730 644801006424 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 644801006425 ATP binding site [chemical binding]; other site 644801006426 Mg2+ binding site [ion binding]; other site 644801006427 G-X-G motif; other site 644801006428 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644801006429 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 644801006430 active site 644801006431 phosphorylation site [posttranslational modification] 644801006432 intermolecular recognition site; other site 644801006433 dimerization interface [polypeptide binding]; other site 644801006434 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 644801006435 DNA binding residues [nucleotide binding] 644801006436 dimerization interface [polypeptide binding]; other site 644801006437 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644801006438 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 644801006439 N-terminal plug; other site 644801006440 ligand-binding site [chemical binding]; other site 644801006441 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 644801006442 putative substrate translocation pore; other site 644801006443 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 644801006444 catalytic site [active] 644801006445 putative active site [active] 644801006446 putative substrate binding site [chemical binding]; other site 644801006447 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 644801006448 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 644801006449 PAS domain; Region: PAS_9; pfam13426 644801006450 putative active site [active] 644801006451 heme pocket [chemical binding]; other site 644801006452 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 644801006453 PAS domain; Region: PAS_9; pfam13426 644801006454 putative active site [active] 644801006455 heme pocket [chemical binding]; other site 644801006456 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801006457 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801006458 dimer interface [polypeptide binding]; other site 644801006459 putative CheW interface [polypeptide binding]; other site 644801006460 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 644801006461 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644801006462 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644801006463 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644801006464 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644801006465 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644801006466 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 644801006467 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 644801006468 dimer interface [polypeptide binding]; other site 644801006469 Trp docking motif [polypeptide binding]; other site 644801006470 active site 644801006471 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801006472 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644801006473 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 644801006474 substrate binding pocket [chemical binding]; other site 644801006475 membrane-bound complex binding site; other site 644801006476 hinge residues; other site 644801006477 Predicted secreted protein [Function unknown]; Region: COG5501 644801006478 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 644801006479 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 644801006480 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644801006481 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644801006482 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 644801006483 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 644801006484 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 644801006485 dimer interface [polypeptide binding]; other site 644801006486 Trp docking motif [polypeptide binding]; other site 644801006487 active site 644801006488 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801006489 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801006490 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644801006491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801006492 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 644801006493 classical (c) SDRs; Region: SDR_c; cd05233 644801006494 NAD(P) binding site [chemical binding]; other site 644801006495 active site 644801006496 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 644801006497 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 644801006498 NAD binding site [chemical binding]; other site 644801006499 homotetramer interface [polypeptide binding]; other site 644801006500 homodimer interface [polypeptide binding]; other site 644801006501 substrate binding site [chemical binding]; other site 644801006502 active site 644801006503 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 644801006504 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 644801006505 Walker A/P-loop; other site 644801006506 ATP binding site [chemical binding]; other site 644801006507 Q-loop/lid; other site 644801006508 ABC transporter signature motif; other site 644801006509 Walker B; other site 644801006510 D-loop; other site 644801006511 H-loop/switch region; other site 644801006512 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 644801006513 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 644801006514 Walker A/P-loop; other site 644801006515 ATP binding site [chemical binding]; other site 644801006516 Q-loop/lid; other site 644801006517 ABC transporter signature motif; other site 644801006518 Walker B; other site 644801006519 D-loop; other site 644801006520 H-loop/switch region; other site 644801006521 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 644801006522 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 644801006523 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801006524 dimer interface [polypeptide binding]; other site 644801006525 conserved gate region; other site 644801006526 putative PBP binding loops; other site 644801006527 ABC-ATPase subunit interface; other site 644801006528 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 644801006529 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801006530 dimer interface [polypeptide binding]; other site 644801006531 conserved gate region; other site 644801006532 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 644801006533 ABC-ATPase subunit interface; other site 644801006534 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 644801006535 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 644801006536 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 644801006537 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 644801006538 HDOD domain; Region: HDOD; pfam08668 644801006539 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 644801006540 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 644801006541 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644801006542 catalytic residue [active] 644801006543 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644801006544 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644801006545 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644801006546 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 644801006547 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 644801006548 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 644801006549 RNA/DNA hybrid binding site [nucleotide binding]; other site 644801006550 active site 644801006551 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 644801006552 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 644801006553 active site 644801006554 catalytic site [active] 644801006555 substrate binding site [chemical binding]; other site 644801006556 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 644801006557 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 644801006558 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 644801006559 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644801006560 catalytic residue [active] 644801006561 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 644801006562 enoyl-CoA hydratase; Provisional; Region: PRK06142 644801006563 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 644801006564 substrate binding site [chemical binding]; other site 644801006565 oxyanion hole (OAH) forming residues; other site 644801006566 trimer interface [polypeptide binding]; other site 644801006567 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 644801006568 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 644801006569 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 644801006570 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 644801006571 putative NADH binding site [chemical binding]; other site 644801006572 putative active site [active] 644801006573 nudix motif; other site 644801006574 putative metal binding site [ion binding]; other site 644801006575 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644801006576 hypothetical protein; Provisional; Region: PRK10621 644801006577 short chain dehydrogenase; Provisional; Region: PRK07035 644801006578 classical (c) SDRs; Region: SDR_c; cd05233 644801006579 NAD(P) binding site [chemical binding]; other site 644801006580 active site 644801006581 Phosphotransferase enzyme family; Region: APH; pfam01636 644801006582 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 644801006583 putative active site [active] 644801006584 putative substrate binding site [chemical binding]; other site 644801006585 ATP binding site [chemical binding]; other site 644801006586 SCP-2 sterol transfer family; Region: SCP2; pfam02036 644801006587 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 644801006588 catalytic core [active] 644801006589 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 644801006590 putative inner membrane peptidase; Provisional; Region: PRK11778 644801006591 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 644801006592 tandem repeat interface [polypeptide binding]; other site 644801006593 oligomer interface [polypeptide binding]; other site 644801006594 active site residues [active] 644801006595 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 644801006596 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 644801006597 NADP binding site [chemical binding]; other site 644801006598 dimer interface [polypeptide binding]; other site 644801006599 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 644801006600 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 644801006601 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 644801006602 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 644801006603 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 644801006604 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 644801006605 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 644801006606 putative dimer interface [polypeptide binding]; other site 644801006607 Leucine rich repeat; Region: LRR_8; pfam13855 644801006608 Leucine rich repeat; Region: LRR_8; pfam13855 644801006609 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 644801006610 Catalytic domain of Protein Kinases; Region: PKc; cd00180 644801006611 active site 644801006612 ATP binding site [chemical binding]; other site 644801006613 substrate binding site [chemical binding]; other site 644801006614 activation loop (A-loop); other site 644801006615 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 644801006616 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 644801006617 FeS/SAM binding site; other site 644801006618 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 644801006619 putative substrate translocation pore; other site 644801006620 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 644801006621 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 644801006622 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 644801006623 AAA domain; Region: AAA_28; pfam13521 644801006624 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 644801006625 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644801006626 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 644801006627 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 644801006628 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 644801006629 substrate binding pocket [chemical binding]; other site 644801006630 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 644801006631 B12 binding site [chemical binding]; other site 644801006632 cobalt ligand [ion binding]; other site 644801006633 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 644801006634 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 644801006635 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 644801006636 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 644801006637 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 644801006638 Response regulator receiver domain; Region: Response_reg; pfam00072 644801006639 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 644801006640 active site 644801006641 phosphorylation site [posttranslational modification] 644801006642 intermolecular recognition site; other site 644801006643 dimerization interface [polypeptide binding]; other site 644801006644 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 644801006645 PAS fold; Region: PAS_4; pfam08448 644801006646 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 644801006647 putative active site [active] 644801006648 heme pocket [chemical binding]; other site 644801006649 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801006650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801006651 metal binding site [ion binding]; metal-binding site 644801006652 active site 644801006653 I-site; other site 644801006654 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 644801006655 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 644801006656 active site 644801006657 DNA binding site [nucleotide binding] 644801006658 Int/Topo IB signature motif; other site 644801006659 catalytic residues [active] 644801006660 Predicted membrane protein [Function unknown]; Region: COG2323 644801006661 Cache domain; Region: Cache_2; pfam08269 644801006662 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 644801006663 dimerization interface [polypeptide binding]; other site 644801006664 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801006665 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801006666 dimer interface [polypeptide binding]; other site 644801006667 putative CheW interface [polypeptide binding]; other site 644801006668 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 644801006669 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644801006670 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 644801006671 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 644801006672 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801006673 Walker A/P-loop; other site 644801006674 ATP binding site [chemical binding]; other site 644801006675 Q-loop/lid; other site 644801006676 ABC transporter signature motif; other site 644801006677 Walker B; other site 644801006678 D-loop; other site 644801006679 H-loop/switch region; other site 644801006680 ABC transporter; Region: ABC_tran_2; pfam12848 644801006681 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801006682 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644801006683 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 644801006684 N-terminal plug; other site 644801006685 ligand-binding site [chemical binding]; other site 644801006686 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 644801006687 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 644801006688 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 644801006689 homotrimer interaction site [polypeptide binding]; other site 644801006690 putative active site [active] 644801006691 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 644801006692 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801006693 hydroxyglutarate oxidase; Provisional; Region: PRK11728 644801006694 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 644801006695 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801006696 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 644801006697 dimerization interface [polypeptide binding]; other site 644801006698 Predicted ATPase [General function prediction only]; Region: COG1485 644801006699 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 644801006700 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 644801006701 AAA domain; Region: AAA_33; pfam13671 644801006702 ATP-binding site [chemical binding]; other site 644801006703 Gluconate-6-phosphate binding site [chemical binding]; other site 644801006704 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 644801006705 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 644801006706 DctM-like transporters; Region: DctM; pfam06808 644801006707 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801006708 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 644801006709 Transcriptional regulators [Transcription]; Region: PurR; COG1609 644801006710 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 644801006711 DNA binding site [nucleotide binding] 644801006712 domain linker motif; other site 644801006713 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 644801006714 putative ligand binding site [chemical binding]; other site 644801006715 putative dimerization interface [polypeptide binding]; other site 644801006716 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 644801006717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801006718 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 644801006719 substrate binding pocket [chemical binding]; other site 644801006720 dimerization interface [polypeptide binding]; other site 644801006721 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801006722 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 644801006723 FAD binding site [chemical binding]; other site 644801006724 substrate binding site [chemical binding]; other site 644801006725 catalytic base [active] 644801006726 PBP superfamily domain; Region: PBP_like_2; cl17296 644801006727 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801006728 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801006729 ligand binding site [chemical binding]; other site 644801006730 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 644801006731 putative catalytic site [active] 644801006732 putative phosphate binding site [ion binding]; other site 644801006733 active site 644801006734 metal binding site A [ion binding]; metal-binding site 644801006735 DNA binding site [nucleotide binding] 644801006736 putative AP binding site [nucleotide binding]; other site 644801006737 putative metal binding site B [ion binding]; other site 644801006738 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 644801006739 Coenzyme A binding pocket [chemical binding]; other site 644801006740 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 644801006741 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644801006742 Surface antigen; Region: Bac_surface_Ag; pfam01103 644801006743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 644801006744 Family of unknown function (DUF490); Region: DUF490; pfam04357 644801006745 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 644801006746 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 644801006747 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 644801006748 dimer interface [polypeptide binding]; other site 644801006749 catalytic triad [active] 644801006750 peroxidatic and resolving cysteines [active] 644801006751 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 644801006752 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 644801006753 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 644801006754 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 644801006755 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644801006756 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 644801006757 E3 interaction surface; other site 644801006758 lipoyl attachment site [posttranslational modification]; other site 644801006759 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801006760 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 644801006761 Protein export membrane protein; Region: SecD_SecF; cl14618 644801006762 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 644801006763 Protein export membrane protein; Region: SecD_SecF; cl14618 644801006764 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644801006765 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801006766 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 644801006767 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 644801006768 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 644801006769 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644801006770 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801006771 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801006772 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801006773 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801006774 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 644801006775 putative substrate binding pocket [chemical binding]; other site 644801006776 putative dimerization interface [polypeptide binding]; other site 644801006777 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 644801006778 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 644801006779 putative NAD(P) binding site [chemical binding]; other site 644801006780 short chain dehydrogenase; Provisional; Region: PRK06701 644801006781 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 644801006782 NAD binding site [chemical binding]; other site 644801006783 metal binding site [ion binding]; metal-binding site 644801006784 active site 644801006785 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 644801006786 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 644801006787 putative DNA binding site [nucleotide binding]; other site 644801006788 putative homodimer interface [polypeptide binding]; other site 644801006789 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 644801006790 nucleotide binding site [chemical binding]; other site 644801006791 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 644801006792 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801006793 molybdopterin cofactor binding site; other site 644801006794 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801006795 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801006796 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 644801006797 molybdopterin cofactor binding site; other site 644801006798 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 644801006799 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 644801006800 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 644801006801 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 644801006802 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 644801006803 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 644801006804 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 644801006805 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 644801006806 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 644801006807 active site 644801006808 homodimer interface [polypeptide binding]; other site 644801006809 catalytic site [active] 644801006810 acceptor binding site [chemical binding]; other site 644801006811 trehalose synthase; Region: treS_nterm; TIGR02456 644801006812 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 644801006813 active site 644801006814 catalytic site [active] 644801006815 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 644801006816 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 644801006817 glycogen branching enzyme; Provisional; Region: PRK05402 644801006818 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 644801006819 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 644801006820 active site 644801006821 catalytic site [active] 644801006822 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 644801006823 Predicted integral membrane protein [Function unknown]; Region: COG0392 644801006824 cardiolipin synthase 2; Provisional; Region: PRK11263 644801006825 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 644801006826 putative active site [active] 644801006827 catalytic site [active] 644801006828 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 644801006829 putative active site [active] 644801006830 catalytic site [active] 644801006831 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 644801006832 putative catalytic site [active] 644801006833 putative metal binding site [ion binding]; other site 644801006834 putative phosphate binding site [ion binding]; other site 644801006835 Protein of unknown function DUF72; Region: DUF72; pfam01904 644801006836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801006837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801006838 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 644801006839 putative effector binding pocket; other site 644801006840 dimerization interface [polypeptide binding]; other site 644801006841 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 644801006842 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 644801006843 putative active site [active] 644801006844 metal binding site [ion binding]; metal-binding site 644801006845 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 644801006846 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 644801006847 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 644801006848 Peptidase family M23; Region: Peptidase_M23; pfam01551 644801006849 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 644801006850 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 644801006851 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 644801006852 active site 644801006853 catalytic site [active] 644801006854 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 644801006855 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 644801006856 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 644801006857 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 644801006858 active site 644801006859 catalytic site [active] 644801006860 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 644801006861 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 644801006862 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 644801006863 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 644801006864 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 644801006865 catalytic site [active] 644801006866 active site 644801006867 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 644801006868 glycogen synthase; Provisional; Region: glgA; PRK00654 644801006869 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 644801006870 ADP-binding pocket [chemical binding]; other site 644801006871 homodimer interface [polypeptide binding]; other site 644801006872 Competence-damaged protein; Region: CinA; pfam02464 644801006873 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 644801006874 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644801006875 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 644801006876 dinuclear metal binding motif [ion binding]; other site 644801006877 Predicted membrane protein [Function unknown]; Region: COG3205 644801006878 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 644801006879 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 644801006880 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 644801006881 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 644801006882 active site 644801006883 DNA binding site [nucleotide binding] 644801006884 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 644801006885 DNA binding site [nucleotide binding] 644801006886 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 644801006887 nucleotide binding site [chemical binding]; other site 644801006888 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801006889 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801006890 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801006891 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 644801006892 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 644801006893 transcriptional regulator; Provisional; Region: PRK10632 644801006894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801006895 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 644801006896 putative effector binding pocket; other site 644801006897 dimerization interface [polypeptide binding]; other site 644801006898 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644801006899 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 644801006900 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801006901 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801006902 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 644801006903 Fusaric acid resistance protein family; Region: FUSC; pfam04632 644801006904 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 644801006905 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 644801006906 Cupin domain; Region: Cupin_2; cl17218 644801006907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801006908 replication initiation protein; Region: II; PHA00360 644801006909 Phage replication protein CRI; Region: Phage_CRI; pfam05144 644801006910 Phage X family; Region: Phage_X; cl11585 644801006911 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 644801006912 Zonular occludens toxin (Zot); Region: Zot; cl17485 644801006913 replication initiation protein; Region: II; PHA00360 644801006914 Phage replication protein CRI; Region: Phage_CRI; pfam05144 644801006915 Phage X family; Region: Phage_X; cl11585 644801006916 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 644801006917 Zonular occludens toxin (Zot); Region: Zot; cl17485 644801006918 Phosphopantetheine attachment site; Region: PP-binding; cl09936 644801006919 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 644801006920 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 644801006921 E3 interaction surface; other site 644801006922 lipoyl attachment site [posttranslational modification]; other site 644801006923 e3 binding domain; Region: E3_binding; pfam02817 644801006924 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 644801006925 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 644801006926 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 644801006927 TPP binding site [chemical binding]; other site 644801006928 alpha subunit interface [polypeptide binding]; other site 644801006929 heterodimer interface [polypeptide binding]; other site 644801006930 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644801006931 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 644801006932 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 644801006933 tetramer interface [polypeptide binding]; other site 644801006934 TPP-binding site [chemical binding]; other site 644801006935 heterodimer interface [polypeptide binding]; other site 644801006936 phosphorylation loop region [posttranslational modification] 644801006937 acetyl-CoA synthetase; Provisional; Region: PRK04319 644801006938 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644801006939 acyl-activating enzyme (AAE) consensus motif; other site 644801006940 AMP binding site [chemical binding]; other site 644801006941 active site 644801006942 CoA binding site [chemical binding]; other site 644801006943 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 644801006944 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 644801006945 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801006946 active site 644801006947 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 644801006948 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 644801006949 ligand binding site [chemical binding]; other site 644801006950 flexible hinge region; other site 644801006951 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 644801006952 putative switch regulator; other site 644801006953 non-specific DNA interactions [nucleotide binding]; other site 644801006954 DNA binding site [nucleotide binding] 644801006955 sequence specific DNA binding site [nucleotide binding]; other site 644801006956 putative cAMP binding site [chemical binding]; other site 644801006957 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 644801006958 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 644801006959 Sulfatase; Region: Sulfatase; pfam00884 644801006960 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 644801006961 BNR repeat-like domain; Region: BNR_2; pfam13088 644801006962 Protein of unknown function (DUF461); Region: DUF461; pfam04314 644801006963 glutathione reductase; Validated; Region: PRK06116 644801006964 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644801006965 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801006966 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644801006967 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801006968 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 644801006969 active site 644801006970 metal binding site [ion binding]; metal-binding site 644801006971 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 644801006972 active site 644801006973 tetramer interface; other site 644801006974 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 644801006975 dimerization interface [polypeptide binding]; other site 644801006976 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801006977 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801006978 dimer interface [polypeptide binding]; other site 644801006979 putative CheW interface [polypeptide binding]; other site 644801006980 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 644801006981 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 644801006982 FeS/SAM binding site; other site 644801006983 HemN C-terminal domain; Region: HemN_C; pfam06969 644801006984 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 644801006985 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 644801006986 DEAD_2; Region: DEAD_2; pfam06733 644801006987 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 644801006988 RES domain; Region: RES; pfam08808 644801006989 lysophospholipid transporter LplT; Provisional; Region: PRK11195 644801006990 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 644801006991 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 644801006992 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 644801006993 hypothetical protein; Provisional; Region: PRK02237 644801006994 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 644801006995 active site 644801006996 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 644801006997 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644801006998 Low molecular weight phosphatase family; Region: LMWPc; cl00105 644801006999 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 644801007000 active site 644801007001 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 644801007002 dimerization interface [polypeptide binding]; other site 644801007003 putative DNA binding site [nucleotide binding]; other site 644801007004 putative Zn2+ binding site [ion binding]; other site 644801007005 Low molecular weight phosphatase family; Region: LMWPc; cd00115 644801007006 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 644801007007 active site 644801007008 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 644801007009 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 644801007010 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 644801007011 arsenical-resistance protein; Region: acr3; TIGR00832 644801007012 Predicted permease; Region: DUF318; cl17795 644801007013 Predicted permease; Region: DUF318; cl17795 644801007014 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 644801007015 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 644801007016 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 644801007017 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 644801007018 GIY-YIG motif/motif A; other site 644801007019 active site 644801007020 catalytic site [active] 644801007021 putative DNA binding site [nucleotide binding]; other site 644801007022 metal binding site [ion binding]; metal-binding site 644801007023 UvrB/uvrC motif; Region: UVR; pfam02151 644801007024 Glutamate-cysteine ligase; Region: GshA; pfam08886 644801007025 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 644801007026 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 644801007027 DNA binding site [nucleotide binding] 644801007028 response regulator; Provisional; Region: PRK09483 644801007029 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 644801007030 active site 644801007031 phosphorylation site [posttranslational modification] 644801007032 intermolecular recognition site; other site 644801007033 dimerization interface [polypeptide binding]; other site 644801007034 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 644801007035 DNA binding residues [nucleotide binding] 644801007036 dimerization interface [polypeptide binding]; other site 644801007037 Heavy-metal-associated domain; Region: HMA; pfam00403 644801007038 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 644801007039 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 644801007040 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 644801007041 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801007042 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 644801007043 Outer membrane efflux protein; Region: OEP; pfam02321 644801007044 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 644801007045 PAS domain; Region: PAS_9; pfam13426 644801007046 putative active site [active] 644801007047 heme pocket [chemical binding]; other site 644801007048 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801007049 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 644801007050 dimer interface [polypeptide binding]; other site 644801007051 phosphorylation site [posttranslational modification] 644801007052 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 644801007053 ATP binding site [chemical binding]; other site 644801007054 Mg2+ binding site [ion binding]; other site 644801007055 G-X-G motif; other site 644801007056 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801007057 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 644801007058 active site 644801007059 phosphorylation site [posttranslational modification] 644801007060 intermolecular recognition site; other site 644801007061 dimerization interface [polypeptide binding]; other site 644801007062 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 644801007063 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 644801007064 putative active site [active] 644801007065 metal binding site [ion binding]; metal-binding site 644801007066 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644801007067 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 644801007068 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 644801007069 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 644801007070 FeS/SAM binding site; other site 644801007071 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 644801007072 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 644801007073 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 644801007074 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 644801007075 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 644801007076 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 644801007077 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644801007078 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 644801007079 active site 644801007080 FMN binding site [chemical binding]; other site 644801007081 substrate binding site [chemical binding]; other site 644801007082 putative catalytic residue [active] 644801007083 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 644801007084 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 644801007085 NAD(P) binding site [chemical binding]; other site 644801007086 catalytic residues [active] 644801007087 PqqA family; Region: PqqA; pfam08042 644801007088 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 644801007089 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 644801007090 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 644801007091 FeS/SAM binding site; other site 644801007092 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 644801007093 Predicted membrane protein [Function unknown]; Region: COG3748 644801007094 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 644801007095 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644801007096 catalytic residue [active] 644801007097 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 644801007098 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 644801007099 phosphate binding site [ion binding]; other site 644801007100 periplasmic folding chaperone; Provisional; Region: PRK10788 644801007101 SurA N-terminal domain; Region: SurA_N_3; cl07813 644801007102 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 644801007103 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 644801007104 IHF dimer interface [polypeptide binding]; other site 644801007105 IHF - DNA interface [nucleotide binding]; other site 644801007106 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 644801007107 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644801007108 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 644801007109 Walker A motif; other site 644801007110 ATP binding site [chemical binding]; other site 644801007111 Walker B motif; other site 644801007112 arginine finger; other site 644801007113 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 644801007114 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 644801007115 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 644801007116 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 644801007117 Walker A motif; other site 644801007118 ATP binding site [chemical binding]; other site 644801007119 Walker B motif; other site 644801007120 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 644801007121 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 644801007122 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 644801007123 oligomer interface [polypeptide binding]; other site 644801007124 active site residues [active] 644801007125 trigger factor; Provisional; Region: tig; PRK01490 644801007126 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644801007127 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 644801007128 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 644801007129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 644801007130 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 644801007131 metal ion-dependent adhesion site (MIDAS); other site 644801007132 MoxR-like ATPases [General function prediction only]; Region: COG0714 644801007133 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 644801007134 Walker A motif; other site 644801007135 ATP binding site [chemical binding]; other site 644801007136 Walker B motif; other site 644801007137 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 644801007138 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 644801007139 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 644801007140 Cytochrome c; Region: Cytochrom_C; pfam00034 644801007141 Cytochrome c; Region: Cytochrom_C; pfam00034 644801007142 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 644801007143 rusticyanin; Region: rusti_cyanin; TIGR03095 644801007144 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 644801007145 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 644801007146 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 644801007147 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644801007148 Transcriptional regulators [Transcription]; Region: FadR; COG2186 644801007149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801007150 DNA-binding site [nucleotide binding]; DNA binding site 644801007151 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 644801007152 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 644801007153 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 644801007154 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 644801007155 homodimer interface [polypeptide binding]; other site 644801007156 NADP binding site [chemical binding]; other site 644801007157 substrate binding site [chemical binding]; other site 644801007158 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 644801007159 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 644801007160 active site 644801007161 HIGH motif; other site 644801007162 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 644801007163 KMSKS motif; other site 644801007164 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 644801007165 tRNA binding surface [nucleotide binding]; other site 644801007166 anticodon binding site; other site 644801007167 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 644801007168 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644801007169 active site 644801007170 HIGH motif; other site 644801007171 nucleotide binding site [chemical binding]; other site 644801007172 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 644801007173 KMSKS motif; other site 644801007174 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 644801007175 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 644801007176 substrate binding site [chemical binding]; other site 644801007177 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644801007178 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 644801007179 putative active site [active] 644801007180 putative metal binding site [ion binding]; other site 644801007181 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 644801007182 active site 644801007183 dinuclear metal binding site [ion binding]; other site 644801007184 dimerization interface [polypeptide binding]; other site 644801007185 universal stress protein UspE; Provisional; Region: PRK11175 644801007186 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 644801007187 Ligand Binding Site [chemical binding]; other site 644801007188 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 644801007189 Ligand Binding Site [chemical binding]; other site 644801007190 Predicted Fe-S protein [General function prediction only]; Region: COG3313 644801007191 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 644801007192 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 644801007193 substrate binding site [chemical binding]; other site 644801007194 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 644801007195 substrate binding site [chemical binding]; other site 644801007196 ligand binding site [chemical binding]; other site 644801007197 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 644801007198 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801007199 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801007200 ligand binding site [chemical binding]; other site 644801007201 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 644801007202 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801007203 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 644801007204 DNA binding residues [nucleotide binding] 644801007205 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644801007206 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 644801007207 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 644801007208 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 644801007209 Cl binding site [ion binding]; other site 644801007210 oligomer interface [polypeptide binding]; other site 644801007211 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 644801007212 phosphoenolpyruvate synthase; Validated; Region: PRK06464 644801007213 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 644801007214 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 644801007215 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 644801007216 PEP synthetase regulatory protein; Provisional; Region: PRK05339 644801007217 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 644801007218 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 644801007219 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 644801007220 substrate binding site [chemical binding]; other site 644801007221 ligand binding site [chemical binding]; other site 644801007222 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 644801007223 substrate binding site [chemical binding]; other site 644801007224 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 644801007225 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 644801007226 dimer interface [polypeptide binding]; other site 644801007227 active site 644801007228 citrylCoA binding site [chemical binding]; other site 644801007229 oxalacetate/citrate binding site [chemical binding]; other site 644801007230 coenzyme A binding site [chemical binding]; other site 644801007231 catalytic triad [active] 644801007232 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 644801007233 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 644801007234 tetramer interface [polypeptide binding]; other site 644801007235 active site 644801007236 Mg2+/Mn2+ binding site [ion binding]; other site 644801007237 Transcriptional regulators [Transcription]; Region: GntR; COG1802 644801007238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801007239 DNA-binding site [nucleotide binding]; DNA binding site 644801007240 FCD domain; Region: FCD; pfam07729 644801007241 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 644801007242 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 644801007243 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 644801007244 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 644801007245 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 644801007246 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 644801007247 chorismate binding enzyme; Region: Chorismate_bind; cl10555 644801007248 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 644801007249 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 644801007250 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 644801007251 Active Sites [active] 644801007252 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 644801007253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801007254 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 644801007255 substrate binding site [chemical binding]; other site 644801007256 dimerization interface [polypeptide binding]; other site 644801007257 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 644801007258 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 644801007259 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 644801007260 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 644801007261 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 644801007262 Predicted acetyltransferase [General function prediction only]; Region: COG2388 644801007263 L,D-transpeptidase; Provisional; Region: PRK10260 644801007264 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 644801007265 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 644801007266 active site 644801007267 catalytic triad [active] 644801007268 oxyanion hole [active] 644801007269 switch loop; other site 644801007270 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 644801007271 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644801007272 Walker A/P-loop; other site 644801007273 ATP binding site [chemical binding]; other site 644801007274 Q-loop/lid; other site 644801007275 ABC transporter signature motif; other site 644801007276 Walker B; other site 644801007277 D-loop; other site 644801007278 H-loop/switch region; other site 644801007279 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 644801007280 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 644801007281 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 644801007282 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 644801007283 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 644801007284 lipase chaperone; Provisional; Region: PRK01294 644801007285 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 644801007286 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644801007287 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 644801007288 substrate binding pocket [chemical binding]; other site 644801007289 membrane-bound complex binding site; other site 644801007290 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 644801007291 hinge residues; other site 644801007292 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 644801007293 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644801007294 catalytic residue [active] 644801007295 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 644801007296 active site 644801007297 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 644801007298 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 644801007299 dimerization interface [polypeptide binding]; other site 644801007300 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801007301 dimer interface [polypeptide binding]; other site 644801007302 putative CheW interface [polypeptide binding]; other site 644801007303 ykkC-yxkD leader; Psest_2345 644801007304 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644801007305 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801007306 dimer interface [polypeptide binding]; other site 644801007307 conserved gate region; other site 644801007308 putative PBP binding loops; other site 644801007309 ABC-ATPase subunit interface; other site 644801007310 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 644801007311 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 644801007312 Walker A/P-loop; other site 644801007313 ATP binding site [chemical binding]; other site 644801007314 Q-loop/lid; other site 644801007315 ABC transporter signature motif; other site 644801007316 Walker B; other site 644801007317 D-loop; other site 644801007318 H-loop/switch region; other site 644801007319 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 644801007320 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 644801007321 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 644801007322 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 644801007323 mini-ykkC RNA motif; Psest_2350 644801007324 urea carboxylase; Region: urea_carbox; TIGR02712 644801007325 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644801007326 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644801007327 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 644801007328 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 644801007329 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 644801007330 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 644801007331 carboxyltransferase (CT) interaction site; other site 644801007332 biotinylation site [posttranslational modification]; other site 644801007333 allophanate hydrolase; Provisional; Region: PRK08186 644801007334 Amidase; Region: Amidase; cl11426 644801007335 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 644801007336 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 644801007337 active site 644801007338 catalytic tetrad [active] 644801007339 ykkC-yxkD leader; Psest_2354 644801007340 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644801007341 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 644801007342 Fatty acid desaturase; Region: FA_desaturase; pfam00487 644801007343 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 644801007344 putative di-iron ligands [ion binding]; other site 644801007345 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 644801007346 classical (c) SDRs; Region: SDR_c; cd05233 644801007347 NAD(P) binding site [chemical binding]; other site 644801007348 active site 644801007349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801007350 NAD(P) binding site [chemical binding]; other site 644801007351 active site 644801007352 Creatinine amidohydrolase; Region: Creatininase; pfam02633 644801007353 Isochorismatase family; Region: Isochorismatase; pfam00857 644801007354 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 644801007355 catalytic triad [active] 644801007356 conserved cis-peptide bond; other site 644801007357 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644801007358 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644801007359 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801007360 dimer interface [polypeptide binding]; other site 644801007361 conserved gate region; other site 644801007362 putative PBP binding loops; other site 644801007363 ABC-ATPase subunit interface; other site 644801007364 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 644801007365 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 644801007366 Walker A/P-loop; other site 644801007367 ATP binding site [chemical binding]; other site 644801007368 Q-loop/lid; other site 644801007369 ABC transporter signature motif; other site 644801007370 Walker B; other site 644801007371 D-loop; other site 644801007372 H-loop/switch region; other site 644801007373 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 644801007374 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 644801007375 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 644801007376 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 644801007377 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644801007378 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 644801007379 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 644801007380 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801007381 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 644801007382 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 644801007383 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 644801007384 YccA-like proteins; Region: YccA_like; cd10433 644801007385 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 644801007386 sulfur relay protein TusC; Validated; Region: PRK00211 644801007387 DsrH like protein; Region: DsrH; cl17347 644801007388 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 644801007389 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 644801007390 hypothetical protein; Validated; Region: PRK09071 644801007391 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 644801007392 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 644801007393 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 644801007394 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 644801007395 putative dimer interface [polypeptide binding]; other site 644801007396 N-terminal domain interface [polypeptide binding]; other site 644801007397 putative substrate binding pocket (H-site) [chemical binding]; other site 644801007398 PAS fold; Region: PAS_7; pfam12860 644801007399 PAS fold; Region: PAS_7; pfam12860 644801007400 PAS domain S-box; Region: sensory_box; TIGR00229 644801007401 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 644801007402 putative active site [active] 644801007403 heme pocket [chemical binding]; other site 644801007404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801007405 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 644801007406 dimer interface [polypeptide binding]; other site 644801007407 phosphorylation site [posttranslational modification] 644801007408 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 644801007409 ATP binding site [chemical binding]; other site 644801007410 Mg2+ binding site [ion binding]; other site 644801007411 G-X-G motif; other site 644801007412 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801007413 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 644801007414 active site 644801007415 phosphorylation site [posttranslational modification] 644801007416 intermolecular recognition site; other site 644801007417 dimerization interface [polypeptide binding]; other site 644801007418 Uncharacterized conserved protein [Function unknown]; Region: COG3287 644801007419 FIST N domain; Region: FIST; pfam08495 644801007420 FIST C domain; Region: FIST_C; pfam10442 644801007421 Gram-negative porin; Region: Porin_4; pfam13609 644801007422 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 644801007423 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 644801007424 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644801007425 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644801007426 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 644801007427 DNA binding residues [nucleotide binding] 644801007428 B12 binding domain; Region: B12-binding_2; pfam02607 644801007429 Protein of unknown function, DUF393; Region: DUF393; pfam04134 644801007430 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 644801007431 homodecamer interface [polypeptide binding]; other site 644801007432 GTP cyclohydrolase I; Provisional; Region: PLN03044 644801007433 active site 644801007434 putative catalytic site residues [active] 644801007435 zinc binding site [ion binding]; other site 644801007436 GTP-CH-I/GFRP interaction surface; other site 644801007437 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 644801007438 homooctamer interface [polypeptide binding]; other site 644801007439 active site 644801007440 MFS/sugar transport protein; Region: MFS_2; pfam13347 644801007441 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 644801007442 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 644801007443 PAS domain; Region: PAS_9; pfam13426 644801007444 putative active site [active] 644801007445 heme pocket [chemical binding]; other site 644801007446 PAS fold; Region: PAS_4; pfam08448 644801007447 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 644801007448 putative active site [active] 644801007449 heme pocket [chemical binding]; other site 644801007450 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 644801007451 PAS domain; Region: PAS_9; pfam13426 644801007452 putative active site [active] 644801007453 heme pocket [chemical binding]; other site 644801007454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801007455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801007456 metal binding site [ion binding]; metal-binding site 644801007457 active site 644801007458 I-site; other site 644801007459 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 644801007460 ferrochelatase; Reviewed; Region: hemH; PRK00035 644801007461 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 644801007462 C-terminal domain interface [polypeptide binding]; other site 644801007463 active site 644801007464 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 644801007465 active site 644801007466 N-terminal domain interface [polypeptide binding]; other site 644801007467 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 644801007468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801007469 NAD(P) binding site [chemical binding]; other site 644801007470 active site 644801007471 Protein of unknown function (DUF523); Region: DUF523; pfam04463 644801007472 Uncharacterized conserved protein [Function unknown]; Region: COG3272 644801007473 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 644801007474 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 644801007475 DNA binding residues [nucleotide binding] 644801007476 B12 binding domain; Region: B12-binding_2; pfam02607 644801007477 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 644801007478 DNA photolyase; Region: DNA_photolyase; pfam00875 644801007479 SnoaL-like domain; Region: SnoaL_2; pfam12680 644801007480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801007481 short chain dehydrogenase; Provisional; Region: PRK07023 644801007482 NAD(P) binding site [chemical binding]; other site 644801007483 active site 644801007484 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 644801007485 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644801007486 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 644801007487 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 644801007488 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 644801007489 S-adenosylmethionine binding site [chemical binding]; other site 644801007490 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801007491 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801007492 dimer interface [polypeptide binding]; other site 644801007493 putative CheW interface [polypeptide binding]; other site 644801007494 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 644801007495 NAD-dependent deacetylase; Provisional; Region: PRK00481 644801007496 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 644801007497 NAD+ binding site [chemical binding]; other site 644801007498 substrate binding site [chemical binding]; other site 644801007499 Zn binding site [ion binding]; other site 644801007500 nitrite reductase subunit NirD; Provisional; Region: PRK14989 644801007501 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801007502 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 644801007503 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 644801007504 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 644801007505 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 644801007506 Protein phosphatase 2C; Region: PP2C; pfam00481 644801007507 active site 644801007508 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 644801007509 Catalytic domain of Protein Kinases; Region: PKc; cd00180 644801007510 active site 644801007511 ATP binding site [chemical binding]; other site 644801007512 substrate binding site [chemical binding]; other site 644801007513 activation loop (A-loop); other site 644801007514 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 644801007515 Family description; Region: UvrD_C_2; pfam13538 644801007516 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644801007517 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644801007518 GAF domain; Region: GAF; pfam01590 644801007519 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644801007520 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 644801007521 dimer interface [polypeptide binding]; other site 644801007522 phosphorylation site [posttranslational modification] 644801007523 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 644801007524 ATP binding site [chemical binding]; other site 644801007525 G-X-G motif; other site 644801007526 Response regulator receiver domain; Region: Response_reg; pfam00072 644801007527 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 644801007528 active site 644801007529 phosphorylation site [posttranslational modification] 644801007530 intermolecular recognition site; other site 644801007531 dimerization interface [polypeptide binding]; other site 644801007532 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 644801007533 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 644801007534 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 644801007535 TolR protein; Region: tolR; TIGR02801 644801007536 TolQ protein; Region: tolQ; TIGR02796 644801007537 Phytase; Region: Phytase; cl17685 644801007538 Phytase; Region: Phytase; cl17685 644801007539 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 644801007540 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 644801007541 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 644801007542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801007543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801007544 metal binding site [ion binding]; metal-binding site 644801007545 active site 644801007546 I-site; other site 644801007547 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 644801007548 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644801007549 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801007550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801007551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801007552 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 644801007553 dimerization interface [polypeptide binding]; other site 644801007554 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 644801007555 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 644801007556 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 644801007557 putative molybdopterin cofactor binding site [chemical binding]; other site 644801007558 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 644801007559 putative molybdopterin cofactor binding site; other site 644801007560 Uncharacterized conserved protein [Function unknown]; Region: COG3791 644801007561 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644801007562 TrkA-N domain; Region: TrkA_N; pfam02254 644801007563 TrkA-C domain; Region: TrkA_C; pfam02080 644801007564 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 644801007565 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 644801007566 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 644801007567 PAS fold; Region: PAS_3; pfam08447 644801007568 putative active site [active] 644801007569 heme pocket [chemical binding]; other site 644801007570 PAS domain S-box; Region: sensory_box; TIGR00229 644801007571 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 644801007572 putative active site [active] 644801007573 heme pocket [chemical binding]; other site 644801007574 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801007575 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 644801007576 dimer interface [polypeptide binding]; other site 644801007577 phosphorylation site [posttranslational modification] 644801007578 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 644801007579 ATP binding site [chemical binding]; other site 644801007580 Mg2+ binding site [ion binding]; other site 644801007581 G-X-G motif; other site 644801007582 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801007583 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 644801007584 active site 644801007585 phosphorylation site [posttranslational modification] 644801007586 intermolecular recognition site; other site 644801007587 dimerization interface [polypeptide binding]; other site 644801007588 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 644801007589 Bacterial SH3 domain; Region: SH3_3; pfam08239 644801007590 AzlC protein; Region: AzlC; pfam03591 644801007591 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 644801007592 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801007593 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801007594 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 644801007595 Transglycosylase; Region: Transgly; pfam00912 644801007596 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 644801007597 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 644801007598 putative catalytic site [active] 644801007599 putative phosphate binding site [ion binding]; other site 644801007600 putative metal binding site [ion binding]; other site 644801007601 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 644801007602 putative homodimer interface [polypeptide binding]; other site 644801007603 putative active site pocket [active] 644801007604 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 644801007605 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 644801007606 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801007607 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801007608 LysR substrate binding domain; Region: LysR_substrate; pfam03466 644801007609 dimerization interface [polypeptide binding]; other site 644801007610 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 644801007611 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 644801007612 tetrameric interface [polypeptide binding]; other site 644801007613 NAD binding site [chemical binding]; other site 644801007614 catalytic residues [active] 644801007615 enoyl-CoA hydratase; Provisional; Region: PRK05862 644801007616 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 644801007617 substrate binding site [chemical binding]; other site 644801007618 oxyanion hole (OAH) forming residues; other site 644801007619 trimer interface [polypeptide binding]; other site 644801007620 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 644801007621 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 644801007622 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 644801007623 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 644801007624 substrate binding site [chemical binding]; other site 644801007625 oxyanion hole (OAH) forming residues; other site 644801007626 trimer interface [polypeptide binding]; other site 644801007627 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 644801007628 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801007629 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801007630 active site 644801007631 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 644801007632 CoA-transferase family III; Region: CoA_transf_3; pfam02515 644801007633 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 644801007634 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 644801007635 dimer interface [polypeptide binding]; other site 644801007636 acyl-activating enzyme (AAE) consensus motif; other site 644801007637 putative active site [active] 644801007638 AMP binding site [chemical binding]; other site 644801007639 putative CoA binding site [chemical binding]; other site 644801007640 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801007641 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801007642 active site 644801007643 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 644801007644 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 644801007645 dimer interface [polypeptide binding]; other site 644801007646 active site 644801007647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801007648 NAD(P) binding site [chemical binding]; other site 644801007649 active site 644801007650 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 644801007651 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801007652 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801007653 Predicted membrane protein [Function unknown]; Region: COG1238 644801007654 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 644801007655 catalytic residues [active] 644801007656 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 644801007657 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 644801007658 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 644801007659 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 644801007660 active site residue [active] 644801007661 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 644801007662 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 644801007663 active site 644801007664 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 644801007665 active site 2 [active] 644801007666 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 644801007667 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 644801007668 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 644801007669 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 644801007670 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 644801007671 Protein of unknown function DUF58; Region: DUF58; pfam01882 644801007672 MoxR-like ATPases [General function prediction only]; Region: COG0714 644801007673 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 644801007674 Walker A motif; other site 644801007675 ATP binding site [chemical binding]; other site 644801007676 Walker B motif; other site 644801007677 arginine finger; other site 644801007678 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 644801007679 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 644801007680 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644801007681 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 644801007682 Soluble P-type ATPase [General function prediction only]; Region: COG4087 644801007683 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 644801007684 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 644801007685 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 644801007686 active site residue [active] 644801007687 selenophosphate synthetase; Provisional; Region: PRK00943 644801007688 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 644801007689 dimerization interface [polypeptide binding]; other site 644801007690 putative ATP binding site [chemical binding]; other site 644801007691 hypothetical protein; Provisional; Region: PRK10279 644801007692 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 644801007693 active site 644801007694 nucleophile elbow; other site 644801007695 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 644801007696 Domain of unknown function DUF20; Region: UPF0118; pfam01594 644801007697 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 644801007698 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 644801007699 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 644801007700 CoenzymeA binding site [chemical binding]; other site 644801007701 subunit interaction site [polypeptide binding]; other site 644801007702 PHB binding site; other site 644801007703 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 644801007704 catalytic core [active] 644801007705 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 644801007706 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 644801007707 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 644801007708 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 644801007709 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 644801007710 active site 1 [active] 644801007711 dimer interface [polypeptide binding]; other site 644801007712 active site 2 [active] 644801007713 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 644801007714 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 644801007715 dimer interface [polypeptide binding]; other site 644801007716 active site 644801007717 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 644801007718 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644801007719 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801007720 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801007721 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801007722 active site 644801007723 beta-ketothiolase; Provisional; Region: PRK09051 644801007724 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 644801007725 dimer interface [polypeptide binding]; other site 644801007726 active site 644801007727 acyl-CoA synthetase; Validated; Region: PRK08316 644801007728 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644801007729 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 644801007730 acyl-activating enzyme (AAE) consensus motif; other site 644801007731 acyl-activating enzyme (AAE) consensus motif; other site 644801007732 putative AMP binding site [chemical binding]; other site 644801007733 putative active site [active] 644801007734 putative CoA binding site [chemical binding]; other site 644801007735 serine/threonine transporter SstT; Provisional; Region: PRK13628 644801007736 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 644801007737 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644801007738 HAMP domain; Region: HAMP; pfam00672 644801007739 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801007740 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801007741 dimer interface [polypeptide binding]; other site 644801007742 putative CheW interface [polypeptide binding]; other site 644801007743 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644801007744 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 644801007745 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 644801007746 dimerization interface [polypeptide binding]; other site 644801007747 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801007748 dimer interface [polypeptide binding]; other site 644801007749 putative CheW interface [polypeptide binding]; other site 644801007750 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 644801007751 Amidohydrolase; Region: Amidohydro_2; pfam04909 644801007752 OsmC-like protein; Region: OsmC; pfam02566 644801007753 heat shock protein 90; Provisional; Region: PRK05218 644801007754 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 644801007755 ATP binding site [chemical binding]; other site 644801007756 Mg2+ binding site [ion binding]; other site 644801007757 G-X-G motif; other site 644801007758 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 644801007759 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 644801007760 CoenzymeA binding site [chemical binding]; other site 644801007761 subunit interaction site [polypeptide binding]; other site 644801007762 PHB binding site; other site 644801007763 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 644801007764 CoenzymeA binding site [chemical binding]; other site 644801007765 subunit interaction site [polypeptide binding]; other site 644801007766 PHB binding site; other site 644801007767 Predicted membrane protein [Function unknown]; Region: COG3821 644801007768 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 644801007769 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 644801007770 CoA binding domain; Region: CoA_binding; smart00881 644801007771 CoA-ligase; Region: Ligase_CoA; pfam00549 644801007772 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 644801007773 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 644801007774 CoA-ligase; Region: Ligase_CoA; pfam00549 644801007775 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 644801007776 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 644801007777 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801007778 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644801007779 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 644801007780 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 644801007781 E3 interaction surface; other site 644801007782 lipoyl attachment site [posttranslational modification]; other site 644801007783 e3 binding domain; Region: E3_binding; pfam02817 644801007784 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 644801007785 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 644801007786 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 644801007787 TPP-binding site [chemical binding]; other site 644801007788 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 644801007789 PYR/PP interface [polypeptide binding]; other site 644801007790 dimer interface [polypeptide binding]; other site 644801007791 TPP binding site [chemical binding]; other site 644801007792 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 644801007793 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 644801007794 L-aspartate oxidase; Provisional; Region: PRK06175 644801007795 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 644801007796 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 644801007797 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 644801007798 SdhC subunit interface [polypeptide binding]; other site 644801007799 proximal heme binding site [chemical binding]; other site 644801007800 cardiolipin binding site; other site 644801007801 Iron-sulfur protein interface; other site 644801007802 proximal quinone binding site [chemical binding]; other site 644801007803 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 644801007804 Iron-sulfur protein interface; other site 644801007805 proximal quinone binding site [chemical binding]; other site 644801007806 SdhD (CybS) interface [polypeptide binding]; other site 644801007807 proximal heme binding site [chemical binding]; other site 644801007808 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 644801007809 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 644801007810 dimer interface [polypeptide binding]; other site 644801007811 active site 644801007812 citrylCoA binding site [chemical binding]; other site 644801007813 NADH binding [chemical binding]; other site 644801007814 cationic pore residues; other site 644801007815 oxalacetate/citrate binding site [chemical binding]; other site 644801007816 coenzyme A binding site [chemical binding]; other site 644801007817 catalytic triad [active] 644801007818 Protein of unknown function, DUF486; Region: DUF486; pfam04342 644801007819 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 644801007820 flagellar protein FliS; Validated; Region: fliS; PRK05685 644801007821 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 644801007822 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 644801007823 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 644801007824 FlaG protein; Region: FlaG; pfam03646 644801007825 flagellin; Reviewed; Region: PRK08869 644801007826 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644801007827 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644801007828 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 644801007829 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 644801007830 nucleotide binding pocket [chemical binding]; other site 644801007831 K-X-D-G motif; other site 644801007832 catalytic site [active] 644801007833 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 644801007834 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 644801007835 Dimer interface [polypeptide binding]; other site 644801007836 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 644801007837 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 644801007838 FtsZ protein binding site [polypeptide binding]; other site 644801007839 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 644801007840 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 644801007841 Walker A/P-loop; other site 644801007842 ATP binding site [chemical binding]; other site 644801007843 Q-loop/lid; other site 644801007844 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 644801007845 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 644801007846 ABC transporter signature motif; other site 644801007847 Walker B; other site 644801007848 D-loop; other site 644801007849 H-loop/switch region; other site 644801007850 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 644801007851 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 644801007852 FeS/SAM binding site; other site 644801007853 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 644801007854 Ion transport protein; Region: Ion_trans; pfam00520 644801007855 Ion channel; Region: Ion_trans_2; pfam07885 644801007856 Double zinc ribbon; Region: DZR; pfam12773 644801007857 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 644801007858 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 644801007859 Predicted membrane protein [Function unknown]; Region: COG4244 644801007860 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 644801007861 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 644801007862 Cytochrome c; Region: Cytochrom_C; pfam00034 644801007863 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 644801007864 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 644801007865 D-pathway; other site 644801007866 Putative ubiquinol binding site [chemical binding]; other site 644801007867 Low-spin heme (heme b) binding site [chemical binding]; other site 644801007868 Putative water exit pathway; other site 644801007869 Binuclear center (heme o3/CuB) [ion binding]; other site 644801007870 K-pathway; other site 644801007871 Putative proton exit pathway; other site 644801007872 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 644801007873 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 644801007874 CPxP motif; other site 644801007875 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 644801007876 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 644801007877 aconitate hydratase; Validated; Region: PRK09277 644801007878 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 644801007879 substrate binding site [chemical binding]; other site 644801007880 ligand binding site [chemical binding]; other site 644801007881 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 644801007882 substrate binding site [chemical binding]; other site 644801007883 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 644801007884 PAS domain; Region: PAS_9; pfam13426 644801007885 putative active site [active] 644801007886 heme pocket [chemical binding]; other site 644801007887 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801007888 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801007889 dimer interface [polypeptide binding]; other site 644801007890 putative CheW interface [polypeptide binding]; other site 644801007891 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 644801007892 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 644801007893 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 644801007894 Low-spin heme binding site [chemical binding]; other site 644801007895 Putative water exit pathway; other site 644801007896 Binuclear center (active site) [active] 644801007897 Putative proton exit pathway; other site 644801007898 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 644801007899 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 644801007900 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 644801007901 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801007902 Cytochrome c; Region: Cytochrom_C; pfam00034 644801007903 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 644801007904 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 644801007905 Low-spin heme binding site [chemical binding]; other site 644801007906 Putative water exit pathway; other site 644801007907 Binuclear center (active site) [active] 644801007908 Putative proton exit pathway; other site 644801007909 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 644801007910 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 644801007911 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 644801007912 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 644801007913 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801007914 Cytochrome c; Region: Cytochrom_C; pfam00034 644801007915 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 644801007916 4Fe-4S binding domain; Region: Fer4_5; pfam12801 644801007917 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 644801007918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 644801007919 FixH; Region: FixH; pfam05751 644801007920 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 644801007921 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 644801007922 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 644801007923 metal-binding site [ion binding] 644801007924 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644801007925 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 644801007926 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 644801007927 Uncharacterized conserved protein [Function unknown]; Region: COG2836 644801007928 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 644801007929 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 644801007930 homodimer interface [polypeptide binding]; other site 644801007931 NAD binding pocket [chemical binding]; other site 644801007932 ATP binding pocket [chemical binding]; other site 644801007933 Mg binding site [ion binding]; other site 644801007934 active-site loop [active] 644801007935 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 644801007936 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 644801007937 FeS/SAM binding site; other site 644801007938 HemN C-terminal domain; Region: HemN_C; pfam06969 644801007939 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 644801007940 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 644801007941 ligand binding site [chemical binding]; other site 644801007942 flexible hinge region; other site 644801007943 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 644801007944 putative switch regulator; other site 644801007945 non-specific DNA interactions [nucleotide binding]; other site 644801007946 DNA binding site [nucleotide binding] 644801007947 sequence specific DNA binding site [nucleotide binding]; other site 644801007948 putative cAMP binding site [chemical binding]; other site 644801007949 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801007950 active site 644801007951 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 644801007952 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 644801007953 Cu(I) binding site [ion binding]; other site 644801007954 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 644801007955 membrane-bound complex binding site; other site 644801007956 hinge residues; other site 644801007957 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644801007958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801007959 dimer interface [polypeptide binding]; other site 644801007960 conserved gate region; other site 644801007961 putative PBP binding loops; other site 644801007962 ABC-ATPase subunit interface; other site 644801007963 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 644801007964 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 644801007965 Walker A/P-loop; other site 644801007966 ATP binding site [chemical binding]; other site 644801007967 Q-loop/lid; other site 644801007968 ABC transporter signature motif; other site 644801007969 Walker B; other site 644801007970 D-loop; other site 644801007971 H-loop/switch region; other site 644801007972 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 644801007973 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 644801007974 substrate binding pocket [chemical binding]; other site 644801007975 membrane-bound complex binding site; other site 644801007976 hinge residues; other site 644801007977 recombination protein RecR; Reviewed; Region: recR; PRK00076 644801007978 RecR protein; Region: RecR; pfam02132 644801007979 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 644801007980 putative active site [active] 644801007981 putative metal-binding site [ion binding]; other site 644801007982 tetramer interface [polypeptide binding]; other site 644801007983 hypothetical protein; Validated; Region: PRK00153 644801007984 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 644801007985 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 644801007986 Walker A motif; other site 644801007987 ATP binding site [chemical binding]; other site 644801007988 Walker B motif; other site 644801007989 arginine finger; other site 644801007990 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 644801007991 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 644801007992 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 644801007993 ligand binding site [chemical binding]; other site 644801007994 NAD binding site [chemical binding]; other site 644801007995 catalytic site [active] 644801007996 homodimer interface [polypeptide binding]; other site 644801007997 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 644801007998 multidrug efflux protein; Reviewed; Region: PRK01766 644801007999 cation binding site [ion binding]; other site 644801008000 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 644801008001 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 644801008002 ligand binding site [chemical binding]; other site 644801008003 flexible hinge region; other site 644801008004 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 644801008005 active site residue [active] 644801008006 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 644801008007 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 644801008008 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644801008009 catalytic residue [active] 644801008010 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 644801008011 SnoaL-like domain; Region: SnoaL_2; pfam12680 644801008012 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644801008013 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 644801008014 active site 644801008015 FMN binding site [chemical binding]; other site 644801008016 2,4-decadienoyl-CoA binding site; other site 644801008017 catalytic residue [active] 644801008018 4Fe-4S cluster binding site [ion binding]; other site 644801008019 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 644801008020 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 644801008021 active site 644801008022 catalytic triad [active] 644801008023 dimer interface [polypeptide binding]; other site 644801008024 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 644801008025 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644801008026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801008027 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 644801008028 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 644801008029 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 644801008030 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 644801008031 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 644801008032 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 644801008033 active site 644801008034 Zn binding site [ion binding]; other site 644801008035 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644801008036 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 644801008037 putative active site [active] 644801008038 heme pocket [chemical binding]; other site 644801008039 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 644801008040 putative active site [active] 644801008041 heme pocket [chemical binding]; other site 644801008042 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801008043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801008044 metal binding site [ion binding]; metal-binding site 644801008045 active site 644801008046 I-site; other site 644801008047 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 644801008048 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 644801008049 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644801008050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801008051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008052 dimerization interface [polypeptide binding]; other site 644801008053 LysR substrate binding domain; Region: LysR_substrate; pfam03466 644801008054 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 644801008055 dimer interface [polypeptide binding]; other site 644801008056 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 644801008057 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 644801008058 tetramer interface [polypeptide binding]; other site 644801008059 active site 644801008060 Mg2+/Mn2+ binding site [ion binding]; other site 644801008061 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801008062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008063 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 644801008064 putative effector binding pocket; other site 644801008065 putative dimerization interface [polypeptide binding]; other site 644801008066 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 644801008067 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008068 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 644801008069 dimerization interface [polypeptide binding]; other site 644801008070 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 644801008071 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 644801008072 putative C-terminal domain interface [polypeptide binding]; other site 644801008073 putative GSH binding site (G-site) [chemical binding]; other site 644801008074 putative dimer interface [polypeptide binding]; other site 644801008075 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 644801008076 putative N-terminal domain interface [polypeptide binding]; other site 644801008077 putative dimer interface [polypeptide binding]; other site 644801008078 putative substrate binding pocket (H-site) [chemical binding]; other site 644801008079 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 644801008080 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 644801008081 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 644801008082 type II secretion system protein D; Region: type_II_gspD; TIGR02517 644801008083 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 644801008084 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 644801008085 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 644801008086 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 644801008087 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 644801008088 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 644801008089 homodimer interface [polypeptide binding]; other site 644801008090 substrate-cofactor binding pocket; other site 644801008091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801008092 catalytic residue [active] 644801008093 amidophosphoribosyltransferase; Provisional; Region: PRK09246 644801008094 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 644801008095 active site 644801008096 tetramer interface [polypeptide binding]; other site 644801008097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801008098 active site 644801008099 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 644801008100 Colicin V production protein; Region: Colicin_V; cl00567 644801008101 Sporulation related domain; Region: SPOR; pfam05036 644801008102 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 644801008103 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644801008104 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644801008105 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 644801008106 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 644801008107 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 644801008108 active site 644801008109 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 644801008110 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 644801008111 dimerization interface 3.5A [polypeptide binding]; other site 644801008112 active site 644801008113 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 644801008114 FimV N-terminal domain; Region: FimV_core; TIGR03505 644801008115 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 644801008116 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 644801008117 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 644801008118 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 644801008119 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 644801008120 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 644801008121 tartrate dehydrogenase; Region: TTC; TIGR02089 644801008122 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 644801008123 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 644801008124 substrate binding site [chemical binding]; other site 644801008125 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 644801008126 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 644801008127 substrate binding site [chemical binding]; other site 644801008128 ligand binding site [chemical binding]; other site 644801008129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801008130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008131 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 644801008132 dimerization interface [polypeptide binding]; other site 644801008133 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 644801008134 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 644801008135 putative dimer interface [polypeptide binding]; other site 644801008136 short chain dehydrogenase; Provisional; Region: PRK06123 644801008137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801008138 NAD(P) binding site [chemical binding]; other site 644801008139 active site 644801008140 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 644801008141 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 644801008142 FMN binding site [chemical binding]; other site 644801008143 active site 644801008144 catalytic residues [active] 644801008145 substrate binding site [chemical binding]; other site 644801008146 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 644801008147 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 644801008148 inhibitor-cofactor binding pocket; inhibition site 644801008149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801008150 catalytic residue [active] 644801008151 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 644801008152 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 644801008153 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644801008154 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 644801008155 active site 644801008156 tyrosine kinase; Provisional; Region: PRK11519 644801008157 Chain length determinant protein; Region: Wzz; pfam02706 644801008158 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 644801008159 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 644801008160 WbqC-like protein family; Region: WbqC; pfam08889 644801008161 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 644801008162 transcriptional activator RfaH; Region: RfaH; TIGR01955 644801008163 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 644801008164 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644801008165 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 644801008166 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644801008167 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 644801008168 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644801008169 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 644801008170 putative ADP-binding pocket [chemical binding]; other site 644801008171 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 644801008172 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 644801008173 active site 644801008174 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644801008175 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644801008176 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 644801008177 binding surface 644801008178 TPR motif; other site 644801008179 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 644801008180 binding surface 644801008181 TPR repeat; Region: TPR_11; pfam13414 644801008182 TPR motif; other site 644801008183 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 644801008184 binding surface 644801008185 TPR motif; other site 644801008186 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 644801008187 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644801008188 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 644801008189 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644801008190 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 644801008191 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 644801008192 ATP binding site [chemical binding]; other site 644801008193 Walker A motif; other site 644801008194 hexamer interface [polypeptide binding]; other site 644801008195 Walker B motif; other site 644801008196 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 644801008197 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644801008198 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 644801008199 TadE-like protein; Region: TadE; pfam07811 644801008200 TadE-like protein; Region: TadE; pfam07811 644801008201 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 644801008202 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 644801008203 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 644801008204 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 644801008205 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 644801008206 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 644801008207 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 644801008208 Walker A motif; other site 644801008209 ATP binding site [chemical binding]; other site 644801008210 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 644801008211 Flp/Fap pilin component; Region: Flp_Fap; cl01585 644801008212 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 644801008213 intermolecular recognition site; other site 644801008214 active site 644801008215 dimerization interface [polypeptide binding]; other site 644801008216 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801008217 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801008218 Helix-turn-helix domain; Region: HTH_18; pfam12833 644801008219 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 644801008220 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 644801008221 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 644801008222 FeS/SAM binding site; other site 644801008223 TRAM domain; Region: TRAM; cl01282 644801008224 choline dehydrogenase; Validated; Region: PRK02106 644801008225 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 644801008226 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 644801008227 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 644801008228 NAD(P) binding site [chemical binding]; other site 644801008229 catalytic residues [active] 644801008230 choline transport protein BetT; Provisional; Region: PRK09928 644801008231 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 644801008232 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 644801008233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801008234 catalytic residue [active] 644801008235 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 644801008236 homodimer interaction site [polypeptide binding]; other site 644801008237 cofactor binding site; other site 644801008238 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 644801008239 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 644801008240 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 644801008241 active site 644801008242 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 644801008243 SEC-C motif; Region: SEC-C; pfam02810 644801008244 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 644801008245 Water Stress and Hypersensitive response; Region: WHy; smart00769 644801008246 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 644801008247 beta-hexosaminidase; Provisional; Region: PRK05337 644801008248 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 644801008249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 644801008250 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 644801008251 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801008252 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801008253 LexA repressor; Validated; Region: PRK00215 644801008254 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 644801008255 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 644801008256 Catalytic site [active] 644801008257 Cell division inhibitor SulA; Region: SulA; cl01880 644801008258 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 644801008259 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 644801008260 active site 644801008261 interdomain interaction site; other site 644801008262 putative metal-binding site [ion binding]; other site 644801008263 nucleotide binding site [chemical binding]; other site 644801008264 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 644801008265 domain I; other site 644801008266 DNA binding groove [nucleotide binding] 644801008267 phosphate binding site [ion binding]; other site 644801008268 domain II; other site 644801008269 domain III; other site 644801008270 nucleotide binding site [chemical binding]; other site 644801008271 catalytic site [active] 644801008272 domain IV; other site 644801008273 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644801008274 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644801008275 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 644801008276 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 644801008277 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 644801008278 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 644801008279 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 644801008280 dimer interface [polypeptide binding]; other site 644801008281 active site 644801008282 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 644801008283 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 644801008284 substrate binding site [chemical binding]; other site 644801008285 oxyanion hole (OAH) forming residues; other site 644801008286 trimer interface [polypeptide binding]; other site 644801008287 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644801008288 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644801008289 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 644801008290 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 644801008291 acetyl-CoA synthetase; Provisional; Region: PRK00174 644801008292 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 644801008293 active site 644801008294 CoA binding site [chemical binding]; other site 644801008295 acyl-activating enzyme (AAE) consensus motif; other site 644801008296 AMP binding site [chemical binding]; other site 644801008297 acetate binding site [chemical binding]; other site 644801008298 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801008299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008300 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 644801008301 putative dimerization interface [polypeptide binding]; other site 644801008302 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 644801008303 CoA-transferase family III; Region: CoA_transf_3; pfam02515 644801008304 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 644801008305 active site 644801008306 catalytic residues [active] 644801008307 metal binding site [ion binding]; metal-binding site 644801008308 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 644801008309 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801008310 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 644801008311 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 644801008312 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 644801008313 CoA-transferase family III; Region: CoA_transf_3; pfam02515 644801008314 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 644801008315 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 644801008316 dimer interface [polypeptide binding]; other site 644801008317 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801008318 metal binding site [ion binding]; metal-binding site 644801008319 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801008320 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801008321 active site 644801008322 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 644801008323 Uncharacterized conserved protein [Function unknown]; Region: COG3777 644801008324 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 644801008325 active site 2 [active] 644801008326 active site 1 [active] 644801008327 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801008328 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008329 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 644801008330 putative dimerization interface [polypeptide binding]; other site 644801008331 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 644801008332 Predicted membrane protein [Function unknown]; Region: COG4325 644801008333 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 644801008334 putative substrate translocation pore; other site 644801008335 hypothetical protein; Provisional; Region: PRK09256 644801008336 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 644801008337 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 644801008338 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 644801008339 dimerization interface [polypeptide binding]; other site 644801008340 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801008341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801008342 dimer interface [polypeptide binding]; other site 644801008343 putative CheW interface [polypeptide binding]; other site 644801008344 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644801008345 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644801008346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801008347 Walker A/P-loop; other site 644801008348 ATP binding site [chemical binding]; other site 644801008349 Q-loop/lid; other site 644801008350 ABC transporter signature motif; other site 644801008351 Walker B; other site 644801008352 D-loop; other site 644801008353 H-loop/switch region; other site 644801008354 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 644801008355 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 644801008356 catalytic residues [active] 644801008357 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 644801008358 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 644801008359 active site residue [active] 644801008360 BolA-like protein; Region: BolA; pfam01722 644801008361 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 644801008362 fumarate hydratase; Provisional; Region: PRK12425 644801008363 Class II fumarases; Region: Fumarase_classII; cd01362 644801008364 active site 644801008365 tetramer interface [polypeptide binding]; other site 644801008366 outer membrane porin, OprD family; Region: OprD; pfam03573 644801008367 benzoate transporter; Region: benE; TIGR00843 644801008368 Benzoate membrane transport protein; Region: BenE; pfam03594 644801008369 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 644801008370 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 644801008371 dimer interface [polypeptide binding]; other site 644801008372 active site 644801008373 Muconolactone delta-isomerase; Region: MIase; cl01992 644801008374 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 644801008375 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 644801008376 octamer interface [polypeptide binding]; other site 644801008377 active site 644801008378 benzoate transport; Region: 2A0115; TIGR00895 644801008379 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 644801008380 putative substrate translocation pore; other site 644801008381 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 644801008382 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 644801008383 putative NAD(P) binding site [chemical binding]; other site 644801008384 active site 644801008385 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 644801008386 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 644801008387 catalytic loop [active] 644801008388 iron binding site [ion binding]; other site 644801008389 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 644801008390 FAD binding pocket [chemical binding]; other site 644801008391 FAD binding motif [chemical binding]; other site 644801008392 phosphate binding motif [ion binding]; other site 644801008393 beta-alpha-beta structure motif; other site 644801008394 NAD binding pocket [chemical binding]; other site 644801008395 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 644801008396 inter-subunit interface; other site 644801008397 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 644801008398 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 644801008399 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 644801008400 putative alpha subunit interface [polypeptide binding]; other site 644801008401 putative active site [active] 644801008402 putative substrate binding site [chemical binding]; other site 644801008403 Fe binding site [ion binding]; other site 644801008404 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 644801008405 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801008406 Helix-turn-helix domain; Region: HTH_18; pfam12833 644801008407 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801008408 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 644801008409 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 644801008410 active site 644801008411 phosphorylation site [posttranslational modification] 644801008412 intermolecular recognition site; other site 644801008413 dimerization interface [polypeptide binding]; other site 644801008414 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644801008415 Zn2+ binding site [ion binding]; other site 644801008416 Mg2+ binding site [ion binding]; other site 644801008417 Cache domain; Region: Cache_1; pfam02743 644801008418 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 644801008419 putative active site [active] 644801008420 PAS fold; Region: PAS_3; pfam08447 644801008421 heme pocket [chemical binding]; other site 644801008422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801008423 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 644801008424 dimer interface [polypeptide binding]; other site 644801008425 phosphorylation site [posttranslational modification] 644801008426 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 644801008427 ATP binding site [chemical binding]; other site 644801008428 Mg2+ binding site [ion binding]; other site 644801008429 G-X-G motif; other site 644801008430 Response regulator receiver domain; Region: Response_reg; pfam00072 644801008431 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 644801008432 active site 644801008433 phosphorylation site [posttranslational modification] 644801008434 intermolecular recognition site; other site 644801008435 dimerization interface [polypeptide binding]; other site 644801008436 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 644801008437 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 644801008438 P-loop; other site 644801008439 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 644801008440 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644801008441 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 644801008442 active site 644801008443 phosphorylation site [posttranslational modification] 644801008444 intermolecular recognition site; other site 644801008445 dimerization interface [polypeptide binding]; other site 644801008446 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 644801008447 DNA binding residues [nucleotide binding] 644801008448 dimerization interface [polypeptide binding]; other site 644801008449 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 644801008450 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 644801008451 FMN binding site [chemical binding]; other site 644801008452 active site 644801008453 catalytic residues [active] 644801008454 substrate binding site [chemical binding]; other site 644801008455 transaldolase-like protein; Provisional; Region: PTZ00411 644801008456 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 644801008457 active site 644801008458 dimer interface [polypeptide binding]; other site 644801008459 catalytic residue [active] 644801008460 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 644801008461 anti sigma factor interaction site; other site 644801008462 regulatory phosphorylation site [posttranslational modification]; other site 644801008463 Response regulator receiver domain; Region: Response_reg; pfam00072 644801008464 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 644801008465 active site 644801008466 phosphorylation site [posttranslational modification] 644801008467 intermolecular recognition site; other site 644801008468 dimerization interface [polypeptide binding]; other site 644801008469 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 644801008470 PilZ domain; Region: PilZ; pfam07238 644801008471 VacJ like lipoprotein; Region: VacJ; cl01073 644801008472 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 644801008473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 644801008474 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 644801008475 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 644801008476 inner membrane transport permease; Provisional; Region: PRK15066 644801008477 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 644801008478 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 644801008479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801008480 Walker A/P-loop; other site 644801008481 ATP binding site [chemical binding]; other site 644801008482 Q-loop/lid; other site 644801008483 ABC transporter signature motif; other site 644801008484 Walker B; other site 644801008485 D-loop; other site 644801008486 H-loop/switch region; other site 644801008487 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 644801008488 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 644801008489 active site 644801008490 Zn binding site [ion binding]; other site 644801008491 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 644801008492 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 644801008493 inhibitor-cofactor binding pocket; inhibition site 644801008494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801008495 catalytic residue [active] 644801008496 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644801008497 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 644801008498 substrate binding site [chemical binding]; other site 644801008499 oxyanion hole (OAH) forming residues; other site 644801008500 trimer interface [polypeptide binding]; other site 644801008501 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 644801008502 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 644801008503 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644801008504 Zn2+ binding site [ion binding]; other site 644801008505 Mg2+ binding site [ion binding]; other site 644801008506 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 644801008507 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 644801008508 active site residue [active] 644801008509 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 644801008510 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644801008511 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 644801008512 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 644801008513 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 644801008514 active site 644801008515 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 644801008516 sensor protein RstB; Provisional; Region: PRK10604 644801008517 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 644801008518 dimerization interface [polypeptide binding]; other site 644801008519 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 644801008520 dimer interface [polypeptide binding]; other site 644801008521 phosphorylation site [posttranslational modification] 644801008522 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 644801008523 ATP binding site [chemical binding]; other site 644801008524 Mg2+ binding site [ion binding]; other site 644801008525 G-X-G motif; other site 644801008526 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 644801008527 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 644801008528 active site 644801008529 phosphorylation site [posttranslational modification] 644801008530 intermolecular recognition site; other site 644801008531 dimerization interface [polypeptide binding]; other site 644801008532 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 644801008533 DNA binding site [nucleotide binding] 644801008534 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 644801008535 ATP cone domain; Region: ATP-cone; pfam03477 644801008536 ATP cone domain; Region: ATP-cone; pfam03477 644801008537 Class I ribonucleotide reductase; Region: RNR_I; cd01679 644801008538 active site 644801008539 dimer interface [polypeptide binding]; other site 644801008540 catalytic residues [active] 644801008541 effector binding site; other site 644801008542 R2 peptide binding site; other site 644801008543 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 644801008544 dimer interface [polypeptide binding]; other site 644801008545 putative radical transfer pathway; other site 644801008546 diiron center [ion binding]; other site 644801008547 tyrosyl radical; other site 644801008548 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 644801008549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 644801008550 Restriction endonuclease; Region: Mrr_cat; pfam04471 644801008551 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644801008552 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 644801008553 PLD-like domain; Region: PLDc_2; pfam13091 644801008554 putative homodimer interface [polypeptide binding]; other site 644801008555 putative active site [active] 644801008556 catalytic site [active] 644801008557 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 644801008558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008559 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 644801008560 dimerization interface [polypeptide binding]; other site 644801008561 substrate binding pocket [chemical binding]; other site 644801008562 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 644801008563 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644801008564 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 644801008565 dimer interface [polypeptide binding]; other site 644801008566 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 644801008567 active site 644801008568 heme binding site [chemical binding]; other site 644801008569 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 644801008570 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801008571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 644801008572 Coenzyme A binding pocket [chemical binding]; other site 644801008573 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 644801008574 Methyltransferase domain; Region: Methyltransf_12; pfam08242 644801008575 S-adenosylmethionine binding site [chemical binding]; other site 644801008576 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 644801008577 putative hydrophobic ligand binding site [chemical binding]; other site 644801008578 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801008579 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801008580 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 644801008581 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 644801008582 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 644801008583 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644801008584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801008585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008586 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_3; cd08461 644801008587 putative substrate binding pocket [chemical binding]; other site 644801008588 putative dimerization interface [polypeptide binding]; other site 644801008589 Predicted transcriptional regulators [Transcription]; Region: COG1733 644801008590 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 644801008591 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 644801008592 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644801008593 NAD(P) binding site [chemical binding]; other site 644801008594 active site 644801008595 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 644801008596 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 644801008597 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 644801008598 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 644801008599 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 644801008600 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 644801008601 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 644801008602 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 644801008603 DNA binding residues [nucleotide binding] 644801008604 dimer interface [polypeptide binding]; other site 644801008605 putative metal binding site [ion binding]; other site 644801008606 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 644801008607 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 644801008608 metal binding site [ion binding]; metal-binding site 644801008609 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 644801008610 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 644801008611 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 644801008612 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 644801008613 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 644801008614 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 644801008615 Putative glucoamylase; Region: Glycoamylase; pfam10091 644801008616 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 644801008617 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 644801008618 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 644801008619 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 644801008620 Peptidase family U32; Region: Peptidase_U32; pfam01136 644801008621 Collagenase; Region: DUF3656; pfam12392 644801008622 Uncharacterized conserved protein [Function unknown]; Region: COG1801 644801008623 Ion transport protein; Region: Ion_trans; pfam00520 644801008624 Ion channel; Region: Ion_trans_2; pfam07885 644801008625 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 644801008626 ATP binding site [chemical binding]; other site 644801008627 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 644801008628 putative Mg++ binding site [ion binding]; other site 644801008629 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 644801008630 nucleotide binding region [chemical binding]; other site 644801008631 ATP-binding site [chemical binding]; other site 644801008632 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 644801008633 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 644801008634 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 644801008635 amphipathic channel; other site 644801008636 Asn-Pro-Ala signature motifs; other site 644801008637 glycerol kinase; Provisional; Region: glpK; PRK00047 644801008638 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 644801008639 N- and C-terminal domain interface [polypeptide binding]; other site 644801008640 active site 644801008641 MgATP binding site [chemical binding]; other site 644801008642 catalytic site [active] 644801008643 metal binding site [ion binding]; metal-binding site 644801008644 glycerol binding site [chemical binding]; other site 644801008645 homotetramer interface [polypeptide binding]; other site 644801008646 homodimer interface [polypeptide binding]; other site 644801008647 FBP binding site [chemical binding]; other site 644801008648 protein IIAGlc interface [polypeptide binding]; other site 644801008649 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 644801008650 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 644801008651 putative DNA binding site [nucleotide binding]; other site 644801008652 putative Zn2+ binding site [ion binding]; other site 644801008653 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 644801008654 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 644801008655 Cell division protein ZapA; Region: ZapA; pfam05164 644801008656 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 644801008657 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644801008658 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 644801008659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801008660 dimer interface [polypeptide binding]; other site 644801008661 putative CheW interface [polypeptide binding]; other site 644801008662 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 644801008663 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 644801008664 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 644801008665 30S subunit binding site; other site 644801008666 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 644801008667 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 644801008668 active site 644801008669 dimerization interface [polypeptide binding]; other site 644801008670 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 644801008671 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 644801008672 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 644801008673 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 644801008674 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 644801008675 putative ligand binding site [chemical binding]; other site 644801008676 NAD binding site [chemical binding]; other site 644801008677 dimerization interface [polypeptide binding]; other site 644801008678 catalytic site [active] 644801008679 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 644801008680 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 644801008681 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644801008682 Zn2+ binding site [ion binding]; other site 644801008683 Mg2+ binding site [ion binding]; other site 644801008684 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 644801008685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 644801008686 MOSC domain; Region: MOSC; pfam03473 644801008687 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 644801008688 hypothetical protein; Provisional; Region: PRK12378 644801008689 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 644801008690 active site 644801008691 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 644801008692 Ligand Binding Site [chemical binding]; other site 644801008693 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 644801008694 heme-binding site [chemical binding]; other site 644801008695 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 644801008696 active site 644801008697 dimerization interface [polypeptide binding]; other site 644801008698 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 644801008699 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 644801008700 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 644801008701 Na binding site [ion binding]; other site 644801008702 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 644801008703 Coenzyme A binding pocket [chemical binding]; other site 644801008704 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 644801008705 nudix motif; other site 644801008706 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 644801008707 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 644801008708 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801008709 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644801008710 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 644801008711 DNA binding residues [nucleotide binding] 644801008712 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 644801008713 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644801008714 Peptidase family M23; Region: Peptidase_M23; pfam01551 644801008715 Domain of unknown function (DUF368); Region: DUF368; pfam04018 644801008716 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 644801008717 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 644801008718 S-adenosylmethionine binding site [chemical binding]; other site 644801008719 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 644801008720 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 644801008721 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 644801008722 Permutation of conserved domain; other site 644801008723 active site 644801008724 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 644801008725 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 644801008726 homotrimer interaction site [polypeptide binding]; other site 644801008727 zinc binding site [ion binding]; other site 644801008728 CDP-binding sites; other site 644801008729 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 644801008730 dimerization interface [polypeptide binding]; other site 644801008731 putative DNA binding site [nucleotide binding]; other site 644801008732 putative Zn2+ binding site [ion binding]; other site 644801008733 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644801008734 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 644801008735 FMN binding site [chemical binding]; other site 644801008736 active site 644801008737 substrate binding site [chemical binding]; other site 644801008738 catalytic residue [active] 644801008739 S-formylglutathione hydrolase; Region: PLN02442 644801008740 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 644801008741 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 644801008742 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 644801008743 substrate binding site [chemical binding]; other site 644801008744 catalytic Zn binding site [ion binding]; other site 644801008745 NAD binding site [chemical binding]; other site 644801008746 structural Zn binding site [ion binding]; other site 644801008747 dimer interface [polypeptide binding]; other site 644801008748 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801008749 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008750 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 644801008751 putative effector binding pocket; other site 644801008752 putative dimerization interface [polypeptide binding]; other site 644801008753 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; cl00250 644801008754 30S subunit binding site; other site 644801008755 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 644801008756 substrate binding site; other site 644801008757 dimer interface; other site 644801008758 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 644801008759 Septum formation initiator; Region: DivIC; cl17659 644801008760 enolase; Provisional; Region: eno; PRK00077 644801008761 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 644801008762 dimer interface [polypeptide binding]; other site 644801008763 metal binding site [ion binding]; metal-binding site 644801008764 substrate binding pocket [chemical binding]; other site 644801008765 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 644801008766 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 644801008767 CTP synthetase; Validated; Region: pyrG; PRK05380 644801008768 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 644801008769 Catalytic site [active] 644801008770 active site 644801008771 UTP binding site [chemical binding]; other site 644801008772 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 644801008773 active site 644801008774 putative oxyanion hole; other site 644801008775 catalytic triad [active] 644801008776 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 644801008777 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 644801008778 Ligand Binding Site [chemical binding]; other site 644801008779 TilS substrate binding domain; Region: TilS; pfam09179 644801008780 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 644801008781 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 644801008782 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 644801008783 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 644801008784 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 644801008785 putative active site [active] 644801008786 putative PHP Thumb interface [polypeptide binding]; other site 644801008787 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 644801008788 generic binding surface II; other site 644801008789 generic binding surface I; other site 644801008790 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 644801008791 RNA/DNA hybrid binding site [nucleotide binding]; other site 644801008792 active site 644801008793 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 644801008794 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 644801008795 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 644801008796 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 644801008797 active site 644801008798 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 644801008799 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 644801008800 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 644801008801 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 644801008802 trimer interface [polypeptide binding]; other site 644801008803 active site 644801008804 UDP-GlcNAc binding site [chemical binding]; other site 644801008805 lipid binding site [chemical binding]; lipid-binding site 644801008806 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 644801008807 periplasmic chaperone; Provisional; Region: PRK10780 644801008808 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 644801008809 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644801008810 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644801008811 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644801008812 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644801008813 Surface antigen; Region: Bac_surface_Ag; pfam01103 644801008814 zinc metallopeptidase RseP; Provisional; Region: PRK10779 644801008815 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 644801008816 active site 644801008817 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 644801008818 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 644801008819 protein binding site [polypeptide binding]; other site 644801008820 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 644801008821 putative substrate binding region [chemical binding]; other site 644801008822 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 644801008823 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 644801008824 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 644801008825 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 644801008826 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 644801008827 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 644801008828 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 644801008829 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 644801008830 catalytic residue [active] 644801008831 putative FPP diphosphate binding site; other site 644801008832 putative FPP binding hydrophobic cleft; other site 644801008833 dimer interface [polypeptide binding]; other site 644801008834 putative IPP diphosphate binding site; other site 644801008835 ribosome recycling factor; Reviewed; Region: frr; PRK00083 644801008836 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 644801008837 hinge region; other site 644801008838 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 644801008839 putative nucleotide binding site [chemical binding]; other site 644801008840 uridine monophosphate binding site [chemical binding]; other site 644801008841 homohexameric interface [polypeptide binding]; other site 644801008842 elongation factor Ts; Provisional; Region: tsf; PRK09377 644801008843 UBA/TS-N domain; Region: UBA; pfam00627 644801008844 Elongation factor TS; Region: EF_TS; pfam00889 644801008845 Elongation factor TS; Region: EF_TS; pfam00889 644801008846 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 644801008847 rRNA interaction site [nucleotide binding]; other site 644801008848 S8 interaction site; other site 644801008849 putative laminin-1 binding site; other site 644801008850 methionine aminopeptidase; Provisional; Region: PRK08671 644801008851 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 644801008852 active site 644801008853 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 644801008854 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 644801008855 metal binding triad; other site 644801008856 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 644801008857 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644801008858 Zn2+ binding site [ion binding]; other site 644801008859 Mg2+ binding site [ion binding]; other site 644801008860 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 644801008861 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 644801008862 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 644801008863 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 644801008864 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 644801008865 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 644801008866 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 644801008867 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 644801008868 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 644801008869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 644801008870 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 644801008871 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 644801008872 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 644801008873 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 644801008874 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 644801008875 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 644801008876 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801008877 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801008878 ligand binding site [chemical binding]; other site 644801008879 Beta-lactamase; Region: Beta-lactamase; pfam00144 644801008880 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 644801008881 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 644801008882 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 644801008883 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 644801008884 Predicted integral membrane protein [Function unknown]; Region: COG5615 644801008885 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801008886 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801008887 ligand binding site [chemical binding]; other site 644801008888 hypothetical protein; Provisional; Region: PRK00183 644801008889 SEC-C motif; Region: SEC-C; pfam02810 644801008890 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 644801008891 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 644801008892 FAD binding pocket [chemical binding]; other site 644801008893 FAD binding motif [chemical binding]; other site 644801008894 phosphate binding motif [ion binding]; other site 644801008895 beta-alpha-beta structure motif; other site 644801008896 NAD binding pocket [chemical binding]; other site 644801008897 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 644801008898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801008899 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 644801008900 putative dimerization interface [polypeptide binding]; other site 644801008901 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644801008902 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 644801008903 active site 644801008904 phosphorylation site [posttranslational modification] 644801008905 intermolecular recognition site; other site 644801008906 dimerization interface [polypeptide binding]; other site 644801008907 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 644801008908 DNA binding residues [nucleotide binding] 644801008909 dimerization interface [polypeptide binding]; other site 644801008910 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 644801008911 EamA-like transporter family; Region: EamA; pfam00892 644801008912 Uncharacterized conserved protein [Function unknown]; Region: COG3148 644801008913 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 644801008914 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 644801008915 XFP N-terminal domain; Region: XFP_N; pfam09364 644801008916 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 644801008917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644801008918 Beta-Casp domain; Region: Beta-Casp; smart01027 644801008919 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 644801008920 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 644801008921 recombination regulator RecX; Reviewed; Region: recX; PRK00117 644801008922 recombinase A; Provisional; Region: recA; PRK09354 644801008923 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 644801008924 hexamer interface [polypeptide binding]; other site 644801008925 Walker A motif; other site 644801008926 ATP binding site [chemical binding]; other site 644801008927 Walker B motif; other site 644801008928 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 644801008929 Acyltransferase family; Region: Acyl_transf_3; pfam01757 644801008930 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 644801008931 MutS domain I; Region: MutS_I; pfam01624 644801008932 MutS domain II; Region: MutS_II; pfam05188 644801008933 MutS domain III; Region: MutS_III; pfam05192 644801008934 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 644801008935 Walker A/P-loop; other site 644801008936 ATP binding site [chemical binding]; other site 644801008937 Q-loop/lid; other site 644801008938 ABC transporter signature motif; other site 644801008939 Walker B; other site 644801008940 D-loop; other site 644801008941 H-loop/switch region; other site 644801008942 Ferredoxin [Energy production and conversion]; Region: COG1146 644801008943 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 644801008944 CsbD-like; Region: CsbD; pfam05532 644801008945 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 644801008946 Predicted deacetylase [General function prediction only]; Region: COG3233 644801008947 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 644801008948 putative active site [active] 644801008949 putative Zn binding site [ion binding]; other site 644801008950 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644801008951 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 644801008952 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 644801008953 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 644801008954 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 644801008955 Acid Phosphatase; Region: Acid_PPase; cl17256 644801008956 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 644801008957 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 644801008958 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 644801008959 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 644801008960 putative active site [active] 644801008961 heme pocket [chemical binding]; other site 644801008962 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 644801008963 Walker A motif; other site 644801008964 ATP binding site [chemical binding]; other site 644801008965 Walker B motif; other site 644801008966 arginine finger; other site 644801008967 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801008968 SnoaL-like domain; Region: SnoaL_2; pfam12680 644801008969 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 644801008970 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 644801008971 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801008972 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801008973 metal binding site [ion binding]; metal-binding site 644801008974 active site 644801008975 I-site; other site 644801008976 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644801008977 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 644801008978 N-terminal plug; other site 644801008979 ligand-binding site [chemical binding]; other site 644801008980 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801008981 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801008982 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 644801008983 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 644801008984 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 644801008985 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 644801008986 sequence-specific DNA binding site [nucleotide binding]; other site 644801008987 salt bridge; other site 644801008988 Protein of unknown function DUF262; Region: DUF262; pfam03235 644801008989 Uncharacterized conserved protein [Function unknown]; Region: COG1479 644801008990 Uncharacterized conserved protein [Function unknown]; Region: COG3472 644801008991 Helix-turn-helix domain; Region: HTH_17; cl17695 644801008992 integrase; Provisional; Region: int; PHA02601 644801008993 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 644801008994 active site 644801008995 DNA binding site [nucleotide binding] 644801008996 Int/Topo IB signature motif; other site 644801008997 Fic/DOC family; Region: Fic; cl00960 644801008998 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 644801008999 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 644801009000 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 644801009001 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 644801009002 Protein of unknown function, DUF488; Region: DUF488; pfam04343 644801009003 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 644801009004 S1 domain; Region: S1_2; pfam13509 644801009005 S1 domain; Region: S1_2; pfam13509 644801009006 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 644801009007 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 644801009008 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 644801009009 Trp docking motif [polypeptide binding]; other site 644801009010 putative active site [active] 644801009011 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 644801009012 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 644801009013 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 644801009014 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 644801009015 RNA binding surface [nucleotide binding]; other site 644801009016 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 644801009017 active site 644801009018 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 644801009019 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 644801009020 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 644801009021 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 644801009022 ATP binding site [chemical binding]; other site 644801009023 putative Mg++ binding site [ion binding]; other site 644801009024 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 644801009025 nucleotide binding region [chemical binding]; other site 644801009026 ATP-binding site [chemical binding]; other site 644801009027 DEAD/H associated; Region: DEAD_assoc; pfam08494 644801009028 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 644801009029 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 644801009030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801009031 NAD(P) binding site [chemical binding]; other site 644801009032 active site 644801009033 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 644801009034 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 644801009035 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 644801009036 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 644801009037 Methyltransferase domain; Region: Methyltransf_25; pfam13649 644801009038 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 644801009039 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 644801009040 active site 644801009041 catalytic residues [active] 644801009042 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 644801009043 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 644801009044 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 644801009045 active site 644801009046 dimer interface [polypeptide binding]; other site 644801009047 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 644801009048 Ligand Binding Site [chemical binding]; other site 644801009049 Molecular Tunnel; other site 644801009050 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 644801009051 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801009052 Coenzyme A binding pocket [chemical binding]; other site 644801009053 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644801009054 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 644801009055 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 644801009056 putative oligomer interface [polypeptide binding]; other site 644801009057 putative active site [active] 644801009058 metal binding site [ion binding]; metal-binding site 644801009059 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644801009060 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644801009061 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 644801009062 dimer interface [polypeptide binding]; other site 644801009063 phosphorylation site [posttranslational modification] 644801009064 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 644801009065 ATP binding site [chemical binding]; other site 644801009066 Mg2+ binding site [ion binding]; other site 644801009067 G-X-G motif; other site 644801009068 Response regulator receiver domain; Region: Response_reg; pfam00072 644801009069 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 644801009070 active site 644801009071 phosphorylation site [posttranslational modification] 644801009072 intermolecular recognition site; other site 644801009073 dimerization interface [polypeptide binding]; other site 644801009074 hypothetical protein; Provisional; Region: PRK00304 644801009075 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 644801009076 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 644801009077 short chain dehydrogenase; Provisional; Region: PRK05650 644801009078 classical (c) SDRs; Region: SDR_c; cd05233 644801009079 NAD(P) binding site [chemical binding]; other site 644801009080 active site 644801009081 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 644801009082 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 644801009083 Na binding site [ion binding]; other site 644801009084 Predicted membrane protein [Function unknown]; Region: COG3162 644801009085 Predicted membrane protein [Function unknown]; Region: COG3205 644801009086 VacJ like lipoprotein; Region: VacJ; cl01073 644801009087 Pirin-related protein [General function prediction only]; Region: COG1741 644801009088 Pirin; Region: Pirin; pfam02678 644801009089 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 644801009090 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 644801009091 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 644801009092 putative acyl-acceptor binding pocket; other site 644801009093 septum formation inhibitor; Reviewed; Region: minC; PRK00339 644801009094 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 644801009095 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 644801009096 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 644801009097 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 644801009098 Switch I; other site 644801009099 Switch II; other site 644801009100 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 644801009101 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 644801009102 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 644801009103 active site 644801009104 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 644801009105 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 644801009106 active site 644801009107 metal binding site [ion binding]; metal-binding site 644801009108 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 644801009109 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 644801009110 NAD(P) binding site [chemical binding]; other site 644801009111 carboxy-terminal protease; Provisional; Region: PRK11186 644801009112 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 644801009113 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 644801009114 protein binding site [polypeptide binding]; other site 644801009115 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 644801009116 Catalytic dyad [active] 644801009117 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 644801009118 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 644801009119 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644801009120 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 644801009121 salt bridge; other site 644801009122 non-specific DNA binding site [nucleotide binding]; other site 644801009123 sequence-specific DNA binding site [nucleotide binding]; other site 644801009124 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 644801009125 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 644801009126 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 644801009127 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644801009128 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644801009129 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 644801009130 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644801009131 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 644801009132 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 644801009133 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 644801009134 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 644801009135 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 644801009136 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 644801009137 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 644801009138 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 644801009139 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644801009140 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644801009141 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 644801009142 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 644801009143 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 644801009144 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644801009145 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 644801009146 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644801009147 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 644801009148 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 644801009149 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 644801009150 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 644801009151 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644801009152 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644801009153 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 644801009154 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 644801009155 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 644801009156 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 644801009157 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 644801009158 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 644801009159 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801009160 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 644801009161 active site 644801009162 phosphorylation site [posttranslational modification] 644801009163 intermolecular recognition site; other site 644801009164 dimerization interface [polypeptide binding]; other site 644801009165 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 644801009166 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 644801009167 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 644801009168 FlgN protein; Region: FlgN; pfam05130 644801009169 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 644801009170 PilZ domain; Region: PilZ; pfam07238 644801009171 Arc-like DNA binding domain; Region: Arc; pfam03869 644801009172 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 644801009173 oxaloacetate decarboxylase; Provisional; Region: PRK14040 644801009174 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 644801009175 active site 644801009176 catalytic residues [active] 644801009177 metal binding site [ion binding]; metal-binding site 644801009178 homodimer binding site [polypeptide binding]; other site 644801009179 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 644801009180 carboxyltransferase (CT) interaction site; other site 644801009181 biotinylation site [posttranslational modification]; other site 644801009182 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 644801009183 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 644801009184 MgtE intracellular N domain; Region: MgtE_N; smart00924 644801009185 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 644801009186 Divalent cation transporter; Region: MgtE; cl00786 644801009187 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 644801009188 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 644801009189 carbon storage regulator; Provisional; Region: PRK01712 644801009190 aspartate kinase; Reviewed; Region: PRK06635 644801009191 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 644801009192 putative nucleotide binding site [chemical binding]; other site 644801009193 putative catalytic residues [active] 644801009194 putative Mg ion binding site [ion binding]; other site 644801009195 putative aspartate binding site [chemical binding]; other site 644801009196 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 644801009197 putative allosteric regulatory site; other site 644801009198 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 644801009199 putative allosteric regulatory residue; other site 644801009200 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 644801009201 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 644801009202 motif 1; other site 644801009203 active site 644801009204 motif 2; other site 644801009205 motif 3; other site 644801009206 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 644801009207 DHHA1 domain; Region: DHHA1; pfam02272 644801009208 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 644801009209 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 644801009210 tetramer interface [polypeptide binding]; other site 644801009211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801009212 catalytic residue [active] 644801009213 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 644801009214 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 644801009215 hypothetical protein; Provisional; Region: PRK05170 644801009216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 644801009217 ribonuclease D; Region: rnd; TIGR01388 644801009218 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 644801009219 catalytic site [active] 644801009220 putative active site [active] 644801009221 putative substrate binding site [chemical binding]; other site 644801009222 HRDC domain; Region: HRDC; pfam00570 644801009223 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 644801009224 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 644801009225 active site residue [active] 644801009226 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 644801009227 active site residue [active] 644801009228 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 644801009229 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 644801009230 catalytic residues [active] 644801009231 dimer interface [polypeptide binding]; other site 644801009232 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 644801009233 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 644801009234 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 644801009235 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801009236 dimer interface [polypeptide binding]; other site 644801009237 conserved gate region; other site 644801009238 putative PBP binding loops; other site 644801009239 ABC-ATPase subunit interface; other site 644801009240 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 644801009241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801009242 Walker A/P-loop; other site 644801009243 ATP binding site [chemical binding]; other site 644801009244 Q-loop/lid; other site 644801009245 ABC transporter signature motif; other site 644801009246 Walker B; other site 644801009247 D-loop; other site 644801009248 H-loop/switch region; other site 644801009249 TOBE domain; Region: TOBE; pfam03459 644801009250 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 644801009251 homotrimer interaction site [polypeptide binding]; other site 644801009252 putative active site [active] 644801009253 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801009254 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801009255 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 644801009256 putative effector binding pocket; other site 644801009257 putative dimerization interface [polypeptide binding]; other site 644801009258 cobalamin synthase; Reviewed; Region: cobS; PRK00235 644801009259 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 644801009260 catalytic core [active] 644801009261 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 644801009262 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 644801009263 putative dimer interface [polypeptide binding]; other site 644801009264 active site pocket [active] 644801009265 putative cataytic base [active] 644801009266 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 644801009267 homotrimer interface [polypeptide binding]; other site 644801009268 Walker A motif; other site 644801009269 GTP binding site [chemical binding]; other site 644801009270 Walker B motif; other site 644801009271 cobyric acid synthase; Provisional; Region: PRK00784 644801009272 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 644801009273 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 644801009274 catalytic triad [active] 644801009275 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 644801009276 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 644801009277 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644801009278 catalytic residue [active] 644801009279 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 644801009280 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 644801009281 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 644801009282 cobalamin binding residues [chemical binding]; other site 644801009283 putative BtuC binding residues; other site 644801009284 dimer interface [polypeptide binding]; other site 644801009285 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 644801009286 putative FMN binding site [chemical binding]; other site 644801009287 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 644801009288 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 644801009289 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 644801009290 catalytic triad [active] 644801009291 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 644801009292 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 644801009293 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 644801009294 Walker A motif; other site 644801009295 homodimer interface [polypeptide binding]; other site 644801009296 ATP binding site [chemical binding]; other site 644801009297 hydroxycobalamin binding site [chemical binding]; other site 644801009298 Walker B motif; other site 644801009299 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 644801009300 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 644801009301 N-terminal plug; other site 644801009302 ligand-binding site [chemical binding]; other site 644801009303 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644801009304 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 644801009305 putative active site [active] 644801009306 putative metal binding site [ion binding]; other site 644801009307 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 644801009308 active site 644801009309 metal binding site [ion binding]; metal-binding site 644801009310 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 644801009311 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 644801009312 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 644801009313 NlpC/P60 family; Region: NLPC_P60; pfam00877 644801009314 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 644801009315 NlpC/P60 family; Region: NLPC_P60; pfam00877 644801009316 NAD-dependent deacetylase; Provisional; Region: PRK00481 644801009317 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 644801009318 NAD+ binding site [chemical binding]; other site 644801009319 substrate binding site [chemical binding]; other site 644801009320 Zn binding site [ion binding]; other site 644801009321 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 644801009322 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 644801009323 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 644801009324 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 644801009325 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 644801009326 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 644801009327 AZL_007950 family protein; Region: AZL_007950_fam; TIGR04061 644801009328 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 644801009329 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 644801009330 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 644801009331 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 644801009332 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 644801009333 Ligand Binding Site [chemical binding]; other site 644801009334 DNA-J related protein; Region: DNAJ_related; pfam12339 644801009335 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 644801009336 HSP70 interaction site [polypeptide binding]; other site 644801009337 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 644801009338 Yip1 domain; Region: Yip1; pfam04893 644801009339 hypothetical protein; Provisional; Region: PRK04860 644801009340 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 644801009341 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 644801009342 NapD protein; Region: NapD; pfam03927 644801009343 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 644801009344 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 644801009345 [4Fe-4S] binding site [ion binding]; other site 644801009346 molybdopterin cofactor binding site; other site 644801009347 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 644801009348 molybdopterin cofactor binding site; other site 644801009349 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 644801009350 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 644801009351 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 644801009352 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 644801009353 trimer interface [polypeptide binding]; other site 644801009354 active site 644801009355 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 644801009356 DNA-binding site [nucleotide binding]; DNA binding site 644801009357 RNA-binding motif; other site 644801009358 antiporter inner membrane protein; Provisional; Region: PRK11670 644801009359 Domain of unknown function DUF59; Region: DUF59; pfam01883 644801009360 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 644801009361 Walker A motif; other site 644801009362 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 644801009363 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 644801009364 active site 644801009365 HIGH motif; other site 644801009366 KMSKS motif; other site 644801009367 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 644801009368 tRNA binding surface [nucleotide binding]; other site 644801009369 anticodon binding site; other site 644801009370 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 644801009371 dimer interface [polypeptide binding]; other site 644801009372 putative tRNA-binding site [nucleotide binding]; other site 644801009373 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 644801009374 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 644801009375 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 644801009376 RNA binding surface [nucleotide binding]; other site 644801009377 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 644801009378 active site 644801009379 uracil binding [chemical binding]; other site 644801009380 Flagellin N-methylase; Region: FliB; cl00497 644801009381 integrase; Provisional; Region: int; PHA02601 644801009382 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 644801009383 active site 644801009384 DNA binding site [nucleotide binding] 644801009385 Int/Topo IB signature motif; other site 644801009386 Zonular occludens toxin (Zot); Region: Zot; cl17485 644801009387 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 644801009388 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 644801009389 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 644801009390 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 644801009391 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 644801009392 dimer interface [polypeptide binding]; other site 644801009393 active site 644801009394 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 644801009395 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 644801009396 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 644801009397 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 644801009398 Bacterial transcriptional regulator; Region: IclR; pfam01614 644801009399 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 644801009400 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 644801009401 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 644801009402 Na binding site [ion binding]; other site 644801009403 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644801009404 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 644801009405 N-terminal plug; other site 644801009406 ligand-binding site [chemical binding]; other site 644801009407 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 644801009408 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 644801009409 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 644801009410 Na binding site [ion binding]; other site 644801009411 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 644801009412 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 644801009413 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 644801009414 Glutamate binding site [chemical binding]; other site 644801009415 NAD binding site [chemical binding]; other site 644801009416 catalytic residues [active] 644801009417 Cupin domain; Region: Cupin_2; cl17218 644801009418 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801009419 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644801009420 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801009421 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 644801009422 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 644801009423 Walker A motif; other site 644801009424 ATP binding site [chemical binding]; other site 644801009425 Walker B motif; other site 644801009426 arginine finger; other site 644801009427 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 644801009428 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 644801009429 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 644801009430 S-adenosylmethionine binding site [chemical binding]; other site 644801009431 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644801009432 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 644801009433 S-adenosylmethionine binding site [chemical binding]; other site 644801009434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801009435 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 644801009436 dimerization interface [polypeptide binding]; other site 644801009437 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 644801009438 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 644801009439 active site 644801009440 hydrophilic channel; other site 644801009441 dimerization interface [polypeptide binding]; other site 644801009442 catalytic residues [active] 644801009443 active site lid [active] 644801009444 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 644801009445 Recombination protein O N terminal; Region: RecO_N; pfam11967 644801009446 Recombination protein O C terminal; Region: RecO_C; pfam02565 644801009447 GTPase Era; Reviewed; Region: era; PRK00089 644801009448 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 644801009449 G1 box; other site 644801009450 GTP/Mg2+ binding site [chemical binding]; other site 644801009451 Switch I region; other site 644801009452 G2 box; other site 644801009453 Switch II region; other site 644801009454 G3 box; other site 644801009455 G4 box; other site 644801009456 G5 box; other site 644801009457 KH domain; Region: KH_2; pfam07650 644801009458 ribonuclease III; Reviewed; Region: rnc; PRK00102 644801009459 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 644801009460 dimerization interface [polypeptide binding]; other site 644801009461 active site 644801009462 metal binding site [ion binding]; metal-binding site 644801009463 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 644801009464 signal peptidase I; Provisional; Region: PRK10861 644801009465 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 644801009466 Catalytic site [active] 644801009467 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 644801009468 GTP-binding protein LepA; Provisional; Region: PRK05433 644801009469 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 644801009470 G1 box; other site 644801009471 putative GEF interaction site [polypeptide binding]; other site 644801009472 GTP/Mg2+ binding site [chemical binding]; other site 644801009473 Switch I region; other site 644801009474 G2 box; other site 644801009475 G3 box; other site 644801009476 Switch II region; other site 644801009477 G4 box; other site 644801009478 G5 box; other site 644801009479 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 644801009480 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 644801009481 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 644801009482 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 644801009483 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 644801009484 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 644801009485 protein binding site [polypeptide binding]; other site 644801009486 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 644801009487 protein binding site [polypeptide binding]; other site 644801009488 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 644801009489 anti-sigma E factor; Provisional; Region: rseB; PRK09455 644801009490 MucB/RseB family; Region: MucB_RseB; pfam03888 644801009491 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 644801009492 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 644801009493 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 644801009494 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 644801009495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801009496 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 644801009497 DNA binding residues [nucleotide binding] 644801009498 L-aspartate oxidase; Provisional; Region: PRK09077 644801009499 L-aspartate oxidase; Provisional; Region: PRK06175 644801009500 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 644801009501 Uncharacterized conserved protein [Function unknown]; Region: COG2938 644801009502 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 644801009503 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 644801009504 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 644801009505 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 644801009506 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 644801009507 ligand binding site [chemical binding]; other site 644801009508 active site 644801009509 UGI interface [polypeptide binding]; other site 644801009510 catalytic site [active] 644801009511 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644801009512 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 644801009513 putative ligand binding site [chemical binding]; other site 644801009514 enoyl-CoA hydratase; Provisional; Region: PRK09076 644801009515 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 644801009516 substrate binding site [chemical binding]; other site 644801009517 oxyanion hole (OAH) forming residues; other site 644801009518 trimer interface [polypeptide binding]; other site 644801009519 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 644801009520 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 644801009521 substrate binding site [chemical binding]; other site 644801009522 oxyanion hole (OAH) forming residues; other site 644801009523 trimer interface [polypeptide binding]; other site 644801009524 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 644801009525 electron transport complex protein RsxA; Provisional; Region: PRK05151 644801009526 ferredoxin; Provisional; Region: PRK08764 644801009527 Putative Fe-S cluster; Region: FeS; pfam04060 644801009528 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644801009529 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 644801009530 SLBB domain; Region: SLBB; pfam10531 644801009531 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 644801009532 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 644801009533 FMN-binding domain; Region: FMN_bind; cl01081 644801009534 electron transport complex RsxE subunit; Provisional; Region: PRK12405 644801009535 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 644801009536 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 644801009537 minor groove reading motif; other site 644801009538 helix-hairpin-helix signature motif; other site 644801009539 substrate binding pocket [chemical binding]; other site 644801009540 active site 644801009541 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 644801009542 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801009543 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 644801009544 dimer interface [polypeptide binding]; other site 644801009545 active site 644801009546 metal binding site [ion binding]; metal-binding site 644801009547 glutathione binding site [chemical binding]; other site 644801009548 argininosuccinate synthase; Provisional; Region: PRK13820 644801009549 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 644801009550 ANP binding site [chemical binding]; other site 644801009551 Substrate Binding Site II [chemical binding]; other site 644801009552 Substrate Binding Site I [chemical binding]; other site 644801009553 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801009554 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801009555 ligand binding site [chemical binding]; other site 644801009556 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 644801009557 active site 644801009558 substrate binding pocket [chemical binding]; other site 644801009559 dimer interface [polypeptide binding]; other site 644801009560 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 644801009561 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 644801009562 dimer interface [polypeptide binding]; other site 644801009563 catalytic site [active] 644801009564 putative active site [active] 644801009565 putative substrate binding site [chemical binding]; other site 644801009566 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 644801009567 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 644801009568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801009569 catalytic residue [active] 644801009570 homoserine dehydrogenase; Provisional; Region: PRK06349 644801009571 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 644801009572 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 644801009573 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 644801009574 Uncharacterized conserved protein [Function unknown]; Region: COG3791 644801009575 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 644801009576 dimerization domain [polypeptide binding]; other site 644801009577 dimer interface [polypeptide binding]; other site 644801009578 catalytic residues [active] 644801009579 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 644801009580 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 644801009581 active site 644801009582 Int/Topo IB signature motif; other site 644801009583 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 644801009584 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 644801009585 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 644801009586 RimM N-terminal domain; Region: RimM; pfam01782 644801009587 PRC-barrel domain; Region: PRC; pfam05239 644801009588 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 644801009589 signal recognition particle protein; Provisional; Region: PRK10867 644801009590 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 644801009591 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 644801009592 P loop; other site 644801009593 GTP binding site [chemical binding]; other site 644801009594 Signal peptide binding domain; Region: SRP_SPB; pfam02978 644801009595 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 644801009596 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 644801009597 Domain of unknown function DUF21; Region: DUF21; pfam01595 644801009598 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 644801009599 Transporter associated domain; Region: CorC_HlyC; smart01091 644801009600 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 644801009601 ATP-grasp domain; Region: ATP-grasp; pfam02222 644801009602 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 644801009603 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 644801009604 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 644801009605 trimer interface [polypeptide binding]; other site 644801009606 putative metal binding site [ion binding]; other site 644801009607 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 644801009608 putative active site [active] 644801009609 putative CoA binding site [chemical binding]; other site 644801009610 nudix motif; other site 644801009611 metal binding site [ion binding]; metal-binding site 644801009612 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_4; cd04511 644801009613 nudix motif; other site 644801009614 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 644801009615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 644801009616 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 644801009617 active site 644801009618 Int/Topo IB signature motif; other site 644801009619 catalytic residues [active] 644801009620 DNA binding site [nucleotide binding] 644801009621 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 644801009622 Phage associated DNA primase [General function prediction only]; Region: COG3378 644801009623 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 644801009624 multiple promoter invertase; Provisional; Region: mpi; PRK13413 644801009625 catalytic residues [active] 644801009626 catalytic nucleophile [active] 644801009627 Presynaptic Site I dimer interface [polypeptide binding]; other site 644801009628 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644801009629 Synaptic Flat tetramer interface [polypeptide binding]; other site 644801009630 Synaptic Site I dimer interface [polypeptide binding]; other site 644801009631 DNA binding site [nucleotide binding] 644801009632 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 644801009633 DNA-binding interface [nucleotide binding]; DNA binding site 644801009634 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 644801009635 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 644801009636 dimerization interface [polypeptide binding]; other site 644801009637 ATP binding site [chemical binding]; other site 644801009638 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 644801009639 dimerization interface [polypeptide binding]; other site 644801009640 ATP binding site [chemical binding]; other site 644801009641 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 644801009642 putative active site [active] 644801009643 catalytic triad [active] 644801009644 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 644801009645 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 644801009646 Walker A/P-loop; other site 644801009647 ATP binding site [chemical binding]; other site 644801009648 Q-loop/lid; other site 644801009649 ABC transporter signature motif; other site 644801009650 Walker B; other site 644801009651 D-loop; other site 644801009652 H-loop/switch region; other site 644801009653 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801009654 dimer interface [polypeptide binding]; other site 644801009655 conserved gate region; other site 644801009656 putative PBP binding loops; other site 644801009657 ABC-ATPase subunit interface; other site 644801009658 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 644801009659 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801009660 conserved gate region; other site 644801009661 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801009662 putative PBP binding loops; other site 644801009663 dimer interface [polypeptide binding]; other site 644801009664 ABC-ATPase subunit interface; other site 644801009665 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 644801009666 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 644801009667 substrate binding pocket [chemical binding]; other site 644801009668 membrane-bound complex binding site; other site 644801009669 hinge residues; other site 644801009670 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 644801009671 Serine hydrolase (FSH1); Region: FSH1; pfam03959 644801009672 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 644801009673 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 644801009674 ligand binding site [chemical binding]; other site 644801009675 flexible hinge region; other site 644801009676 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801009677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801009678 metal binding site [ion binding]; metal-binding site 644801009679 active site 644801009680 I-site; other site 644801009681 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 644801009682 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 644801009683 ATP binding site [chemical binding]; other site 644801009684 Mg++ binding site [ion binding]; other site 644801009685 motif III; other site 644801009686 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 644801009687 nucleotide binding region [chemical binding]; other site 644801009688 ATP-binding site [chemical binding]; other site 644801009689 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 644801009690 MoaE homodimer interface [polypeptide binding]; other site 644801009691 MoaD interaction [polypeptide binding]; other site 644801009692 active site residues [active] 644801009693 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 644801009694 MoaE interaction surface [polypeptide binding]; other site 644801009695 MoeB interaction surface [polypeptide binding]; other site 644801009696 thiocarboxylated glycine; other site 644801009697 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 644801009698 trimer interface [polypeptide binding]; other site 644801009699 dimer interface [polypeptide binding]; other site 644801009700 putative active site [active] 644801009701 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 644801009702 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 644801009703 putative active site [active] 644801009704 PhoH-like protein; Region: PhoH; pfam02562 644801009705 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 644801009706 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 644801009707 hypothetical protein; Validated; Region: PRK02101 644801009708 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 644801009709 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 644801009710 Substrate binding site; other site 644801009711 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 644801009712 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 644801009713 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 644801009714 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 644801009715 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 644801009716 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 644801009717 putative active site [active] 644801009718 putative substrate binding site [chemical binding]; other site 644801009719 putative cosubstrate binding site; other site 644801009720 catalytic site [active] 644801009721 exonuclease I; Provisional; Region: sbcB; PRK11779 644801009722 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 644801009723 active site 644801009724 catalytic site [active] 644801009725 substrate binding site [chemical binding]; other site 644801009726 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 644801009727 RDD family; Region: RDD; pfam06271 644801009728 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 644801009729 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 644801009730 MoxR-like ATPases [General function prediction only]; Region: COG0714 644801009731 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 644801009732 Walker A motif; other site 644801009733 ATP binding site [chemical binding]; other site 644801009734 Walker B motif; other site 644801009735 arginine finger; other site 644801009736 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 644801009737 Protein of unknown function DUF58; Region: DUF58; pfam01882 644801009738 PilZ domain; Region: PilZ; pfam07238 644801009739 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 644801009740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 644801009741 pyruvate kinase; Provisional; Region: PRK05826 644801009742 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 644801009743 domain interfaces; other site 644801009744 active site 644801009745 hypothetical protein; Provisional; Region: PRK05713 644801009746 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 644801009747 catalytic loop [active] 644801009748 iron binding site [ion binding]; other site 644801009749 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 644801009750 FAD binding pocket [chemical binding]; other site 644801009751 conserved FAD binding motif [chemical binding]; other site 644801009752 phosphate binding motif [ion binding]; other site 644801009753 beta-alpha-beta structure motif; other site 644801009754 NAD binding pocket [chemical binding]; other site 644801009755 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801009756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801009757 metal binding site [ion binding]; metal-binding site 644801009758 active site 644801009759 I-site; other site 644801009760 putative fumarate hydratase; Provisional; Region: PRK15392 644801009761 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 644801009762 Fumarase C-terminus; Region: Fumerase_C; pfam05683 644801009763 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 644801009764 intracellular protease, PfpI family; Region: PfpI; TIGR01382 644801009765 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 644801009766 conserved cys residue [active] 644801009767 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 644801009768 putative active site [active] 644801009769 catalytic site [active] 644801009770 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 644801009771 PLD-like domain; Region: PLDc_2; pfam13091 644801009772 putative active site [active] 644801009773 catalytic site [active] 644801009774 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801009775 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 644801009776 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644801009777 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 644801009778 putative acyl-acceptor binding pocket; other site 644801009779 Protein of unknown function, DUF479; Region: DUF479; cl01203 644801009780 aldolase II superfamily protein; Provisional; Region: PRK07044 644801009781 intersubunit interface [polypeptide binding]; other site 644801009782 active site 644801009783 Zn2+ binding site [ion binding]; other site 644801009784 flavodoxin; Provisional; Region: PRK05723 644801009785 PilZ domain; Region: PilZ; pfam07238 644801009786 dihydromonapterin reductase; Provisional; Region: PRK06483 644801009787 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 644801009788 NADP binding site [chemical binding]; other site 644801009789 substrate binding pocket [chemical binding]; other site 644801009790 active site 644801009791 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 644801009792 homooctamer interface [polypeptide binding]; other site 644801009793 active site 644801009794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 644801009795 HopJ type III effector protein; Region: HopJ; pfam08888 644801009796 putative sulfate transport protein CysZ; Validated; Region: PRK04949 644801009797 Old yellow enzyme (OYE)-related FMN binding domain, group 5. 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_5_FMN; cd04747 644801009798 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644801009799 putative active site [active] 644801009800 putative FMN binding site [chemical binding]; other site 644801009801 putative substrate binding site [chemical binding]; other site 644801009802 putative catalytic residue [active] 644801009803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801009804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801009805 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 644801009806 catalytic residues [active] 644801009807 dimer interface [polypeptide binding]; other site 644801009808 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 644801009809 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644801009810 propionate/acetate kinase; Provisional; Region: PRK12379 644801009811 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 644801009812 nucleotide binding site [chemical binding]; other site 644801009813 butyrate kinase; Provisional; Region: PRK03011 644801009814 phosphate acetyltransferase; Reviewed; Region: PRK05632 644801009815 DRTGG domain; Region: DRTGG; pfam07085 644801009816 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 644801009817 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644801009818 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 644801009819 putative acyl-acceptor binding pocket; other site 644801009820 Response regulator receiver domain; Region: Response_reg; pfam00072 644801009821 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 644801009822 active site 644801009823 phosphorylation site [posttranslational modification] 644801009824 intermolecular recognition site; other site 644801009825 dimerization interface [polypeptide binding]; other site 644801009826 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 644801009827 putative active site [active] 644801009828 heme pocket [chemical binding]; other site 644801009829 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801009830 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801009831 metal binding site [ion binding]; metal-binding site 644801009832 active site 644801009833 I-site; other site 644801009834 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 644801009835 CHASE domain; Region: CHASE; pfam03924 644801009836 PAS domain S-box; Region: sensory_box; TIGR00229 644801009837 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 644801009838 putative active site [active] 644801009839 heme pocket [chemical binding]; other site 644801009840 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644801009841 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 644801009842 putative active site [active] 644801009843 heme pocket [chemical binding]; other site 644801009844 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 644801009845 dimer interface [polypeptide binding]; other site 644801009846 phosphorylation site [posttranslational modification] 644801009847 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 644801009848 ATP binding site [chemical binding]; other site 644801009849 Mg2+ binding site [ion binding]; other site 644801009850 G-X-G motif; other site 644801009851 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 644801009852 Response regulator receiver domain; Region: Response_reg; pfam00072 644801009853 active site 644801009854 phosphorylation site [posttranslational modification] 644801009855 intermolecular recognition site; other site 644801009856 dimerization interface [polypeptide binding]; other site 644801009857 cheY-homologous receiver domain; Region: REC; smart00448 644801009858 Response regulator receiver domain; Region: Response_reg; pfam00072 644801009859 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 644801009860 active site 644801009861 phosphorylation site [posttranslational modification] 644801009862 intermolecular recognition site; other site 644801009863 dimerization interface [polypeptide binding]; other site 644801009864 putative outer membrane lipoprotein; Provisional; Region: PRK10510 644801009865 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801009866 ligand binding site [chemical binding]; other site 644801009867 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644801009868 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 644801009869 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644801009870 acyl-activating enzyme (AAE) consensus motif; other site 644801009871 AMP binding site [chemical binding]; other site 644801009872 active site 644801009873 CoA binding site [chemical binding]; other site 644801009874 LysE type translocator; Region: LysE; cl00565 644801009875 glycerate dehydrogenase; Provisional; Region: PRK06487 644801009876 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 644801009877 putative ligand binding site [chemical binding]; other site 644801009878 putative NAD binding site [chemical binding]; other site 644801009879 catalytic site [active] 644801009880 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 644801009881 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 644801009882 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 644801009883 S-adenosylmethionine binding site [chemical binding]; other site 644801009884 yybP-ykoY leader; Psest_3225 644801009885 Predicted membrane protein [Function unknown]; Region: COG2119 644801009886 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 644801009887 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 644801009888 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 644801009889 Peptidase family M48; Region: Peptidase_M48; pfam01435 644801009890 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 644801009891 dimerization interface [polypeptide binding]; other site 644801009892 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801009893 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801009894 dimer interface [polypeptide binding]; other site 644801009895 putative CheW interface [polypeptide binding]; other site 644801009896 Uncharacterized conserved protein [Function unknown]; Region: COG2135 644801009897 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 644801009898 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 644801009899 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 644801009900 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644801009901 putative acyl-acceptor binding pocket; other site 644801009902 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644801009903 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 644801009904 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 644801009905 putative transporter; Provisional; Region: PRK11660 644801009906 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 644801009907 Sulfate transporter family; Region: Sulfate_transp; pfam00916 644801009908 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 644801009909 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 644801009910 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 644801009911 NAD binding site [chemical binding]; other site 644801009912 homodimer interface [polypeptide binding]; other site 644801009913 active site 644801009914 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 644801009915 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 644801009916 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 644801009917 SnoaL-like domain; Region: SnoaL_3; pfam13474 644801009918 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 644801009919 MgtC family; Region: MgtC; pfam02308 644801009920 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 644801009921 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 644801009922 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 644801009923 Ferritin-like domain; Region: Ferritin; pfam00210 644801009924 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 644801009925 dinuclear metal binding motif [ion binding]; other site 644801009926 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 644801009927 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 644801009928 cell division protein FtsZ; Validated; Region: PRK09330 644801009929 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 644801009930 nucleotide binding site [chemical binding]; other site 644801009931 SulA interaction site; other site 644801009932 cell division protein FtsA; Region: ftsA; TIGR01174 644801009933 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 644801009934 nucleotide binding site [chemical binding]; other site 644801009935 Cell division protein FtsA; Region: FtsA; pfam14450 644801009936 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 644801009937 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 644801009938 Cell division protein FtsQ; Region: FtsQ; pfam03799 644801009939 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 644801009940 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 644801009941 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644801009942 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 644801009943 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644801009944 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644801009945 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644801009946 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 644801009947 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 644801009948 active site 644801009949 homodimer interface [polypeptide binding]; other site 644801009950 cell division protein FtsW; Region: ftsW; TIGR02614 644801009951 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 644801009952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801009953 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644801009954 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 644801009955 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 644801009956 Mg++ binding site [ion binding]; other site 644801009957 putative catalytic motif [active] 644801009958 putative substrate binding site [chemical binding]; other site 644801009959 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644801009960 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 644801009961 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644801009962 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644801009963 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 644801009964 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644801009965 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644801009966 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644801009967 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 644801009968 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 644801009969 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 644801009970 Cell division protein FtsL; Region: FtsL; pfam04999 644801009971 MraW methylase family; Region: Methyltransf_5; pfam01795 644801009972 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 644801009973 cell division protein MraZ; Reviewed; Region: PRK00326 644801009974 MraZ protein; Region: MraZ; pfam02381 644801009975 MraZ protein; Region: MraZ; pfam02381 644801009976 Predicted methyltransferases [General function prediction only]; Region: COG0313 644801009977 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 644801009978 putative SAM binding site [chemical binding]; other site 644801009979 putative homodimer interface [polypeptide binding]; other site 644801009980 LppC putative lipoprotein; Region: LppC; pfam04348 644801009981 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 644801009982 putative ligand binding site [chemical binding]; other site 644801009983 hypothetical protein; Reviewed; Region: PRK12497 644801009984 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 644801009985 dimer interface [polypeptide binding]; other site 644801009986 active site 644801009987 outer membrane lipoprotein; Provisional; Region: PRK11023 644801009988 BON domain; Region: BON; pfam04972 644801009989 BON domain; Region: BON; pfam04972 644801009990 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 644801009991 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 644801009992 stringent starvation protein A; Provisional; Region: sspA; PRK09481 644801009993 C-terminal domain interface [polypeptide binding]; other site 644801009994 putative GSH binding site (G-site) [chemical binding]; other site 644801009995 dimer interface [polypeptide binding]; other site 644801009996 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 644801009997 dimer interface [polypeptide binding]; other site 644801009998 N-terminal domain interface [polypeptide binding]; other site 644801009999 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 644801010000 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 644801010001 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 644801010002 Qi binding site; other site 644801010003 intrachain domain interface; other site 644801010004 interchain domain interface [polypeptide binding]; other site 644801010005 heme bH binding site [chemical binding]; other site 644801010006 heme bL binding site [chemical binding]; other site 644801010007 Qo binding site; other site 644801010008 interchain domain interface [polypeptide binding]; other site 644801010009 intrachain domain interface; other site 644801010010 Qi binding site; other site 644801010011 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 644801010012 Qo binding site; other site 644801010013 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 644801010014 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 644801010015 [2Fe-2S] cluster binding site [ion binding]; other site 644801010016 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 644801010017 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 644801010018 23S rRNA interface [nucleotide binding]; other site 644801010019 L3 interface [polypeptide binding]; other site 644801010020 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 644801010021 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 644801010022 active site 644801010023 catalytic tetrad [active] 644801010024 Predicted membrane protein [Function unknown]; Region: COG3235 644801010025 DNA gyrase inhibitor; Reviewed; Region: PRK00418 644801010026 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 644801010027 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 644801010028 CoA-binding site [chemical binding]; other site 644801010029 ATP-binding [chemical binding]; other site 644801010030 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 644801010031 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 644801010032 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 644801010033 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 644801010034 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644801010035 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644801010036 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 644801010037 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 644801010038 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 644801010039 Walker A motif; other site 644801010040 ATP binding site [chemical binding]; other site 644801010041 Walker B motif; other site 644801010042 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 644801010043 Pilin (bacterial filament); Region: Pilin; pfam00114 644801010044 Pilin (bacterial filament); Region: Pilin; pfam00114 644801010045 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 644801010046 O-Antigen ligase; Region: Wzy_C; pfam04932 644801010047 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 644801010048 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 644801010049 CysD dimerization site [polypeptide binding]; other site 644801010050 G1 box; other site 644801010051 putative GEF interaction site [polypeptide binding]; other site 644801010052 GTP/Mg2+ binding site [chemical binding]; other site 644801010053 Switch I region; other site 644801010054 G2 box; other site 644801010055 G3 box; other site 644801010056 Switch II region; other site 644801010057 G4 box; other site 644801010058 G5 box; other site 644801010059 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 644801010060 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 644801010061 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 644801010062 ligand-binding site [chemical binding]; other site 644801010063 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 644801010064 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 644801010065 Active Sites [active] 644801010066 Uncharacterized conserved protein [Function unknown]; Region: COG0327 644801010067 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 644801010068 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 644801010069 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 644801010070 protein binding site [polypeptide binding]; other site 644801010071 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 644801010072 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 644801010073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801010074 homodimer interface [polypeptide binding]; other site 644801010075 catalytic residue [active] 644801010076 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 644801010077 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 644801010078 NAD binding site [chemical binding]; other site 644801010079 dimerization interface [polypeptide binding]; other site 644801010080 product binding site; other site 644801010081 substrate binding site [chemical binding]; other site 644801010082 zinc binding site [ion binding]; other site 644801010083 catalytic residues [active] 644801010084 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 644801010085 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 644801010086 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 644801010087 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 644801010088 hinge; other site 644801010089 active site 644801010090 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 644801010091 Predicted membrane protein [Function unknown]; Region: COG3223 644801010092 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 644801010093 anti sigma factor interaction site; other site 644801010094 regulatory phosphorylation site [posttranslational modification]; other site 644801010095 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 644801010096 mce related protein; Region: MCE; pfam02470 644801010097 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 644801010098 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 644801010099 conserved hypothetical integral membrane protein; Region: TIGR00056 644801010100 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 644801010101 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 644801010102 Walker A/P-loop; other site 644801010103 ATP binding site [chemical binding]; other site 644801010104 Q-loop/lid; other site 644801010105 ABC transporter signature motif; other site 644801010106 Walker B; other site 644801010107 D-loop; other site 644801010108 H-loop/switch region; other site 644801010109 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 644801010110 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 644801010111 putative active site [active] 644801010112 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 644801010113 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 644801010114 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 644801010115 active site 644801010116 motif I; other site 644801010117 motif II; other site 644801010118 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 644801010119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 644801010120 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 644801010121 OstA-like protein; Region: OstA; pfam03968 644801010122 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 644801010123 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 644801010124 Walker A/P-loop; other site 644801010125 ATP binding site [chemical binding]; other site 644801010126 Q-loop/lid; other site 644801010127 ABC transporter signature motif; other site 644801010128 Walker B; other site 644801010129 D-loop; other site 644801010130 H-loop/switch region; other site 644801010131 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 644801010132 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 644801010133 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 644801010134 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 644801010135 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 644801010136 30S subunit binding site; other site 644801010137 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 644801010138 active site 644801010139 phosphorylation site [posttranslational modification] 644801010140 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 644801010141 AAA domain; Region: AAA_18; pfam13238 644801010142 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 644801010143 dimerization domain swap beta strand [polypeptide binding]; other site 644801010144 regulatory protein interface [polypeptide binding]; other site 644801010145 active site 644801010146 regulatory phosphorylation site [posttranslational modification]; other site 644801010147 peptidase PmbA; Provisional; Region: PRK11040 644801010148 hypothetical protein; Provisional; Region: PRK05255 644801010149 protease TldD; Provisional; Region: tldD; PRK10735 644801010150 nitrilase; Region: PLN02798 644801010151 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 644801010152 putative active site [active] 644801010153 catalytic triad [active] 644801010154 dimer interface [polypeptide binding]; other site 644801010155 TIGR02099 family protein; Region: TIGR02099 644801010156 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 644801010157 ribonuclease G; Provisional; Region: PRK11712 644801010158 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 644801010159 homodimer interface [polypeptide binding]; other site 644801010160 oligonucleotide binding site [chemical binding]; other site 644801010161 Maf-like protein; Region: Maf; pfam02545 644801010162 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 644801010163 active site 644801010164 dimer interface [polypeptide binding]; other site 644801010165 rod shape-determining protein MreD; Region: MreD; cl01087 644801010166 rod shape-determining protein MreC; Provisional; Region: PRK13922 644801010167 rod shape-determining protein MreC; Region: MreC; pfam04085 644801010168 rod shape-determining protein MreB; Provisional; Region: PRK13927 644801010169 MreB and similar proteins; Region: MreB_like; cd10225 644801010170 nucleotide binding site [chemical binding]; other site 644801010171 Mg binding site [ion binding]; other site 644801010172 putative protofilament interaction site [polypeptide binding]; other site 644801010173 RodZ interaction site [polypeptide binding]; other site 644801010174 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 644801010175 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 644801010176 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 644801010177 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 644801010178 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 644801010179 GatB domain; Region: GatB_Yqey; smart00845 644801010180 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 644801010181 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 644801010182 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 644801010183 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 644801010184 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 644801010185 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 644801010186 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 644801010187 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 644801010188 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 644801010189 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 644801010190 Peptidase family M23; Region: Peptidase_M23; pfam01551 644801010191 Predicted permeases [General function prediction only]; Region: COG0679 644801010192 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 644801010193 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 644801010194 active site 644801010195 phosphorylation site [posttranslational modification] 644801010196 intermolecular recognition site; other site 644801010197 dimerization interface [polypeptide binding]; other site 644801010198 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801010199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801010200 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 644801010201 ATP binding site [chemical binding]; other site 644801010202 G-X-G motif; other site 644801010203 Protein of unknown function (DUF541); Region: SIMPL; cl01077 644801010204 Uncharacterized conserved protein [Function unknown]; Region: COG2968 644801010205 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 644801010206 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 644801010207 N-terminal plug; other site 644801010208 ligand-binding site [chemical binding]; other site 644801010209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 644801010210 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 644801010211 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 644801010212 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644801010213 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 644801010214 Flavodoxin; Region: Flavodoxin_1; pfam00258 644801010215 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_like1; cd06200 644801010216 FAD binding pocket [chemical binding]; other site 644801010217 FAD binding motif [chemical binding]; other site 644801010218 catalytic residues [active] 644801010219 NAD binding pocket [chemical binding]; other site 644801010220 phosphate binding motif [ion binding]; other site 644801010221 beta-alpha-beta structure motif; other site 644801010222 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 644801010223 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 644801010224 N-terminal plug; other site 644801010225 ligand-binding site [chemical binding]; other site 644801010226 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 644801010227 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 644801010228 N-terminal plug; other site 644801010229 ligand-binding site [chemical binding]; other site 644801010230 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 644801010231 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 644801010232 Sel1 repeat; Region: Sel1; cl02723 644801010233 Sel1-like repeats; Region: SEL1; smart00671 644801010234 Sel1-like repeats; Region: SEL1; smart00671 644801010235 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 644801010236 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 644801010237 dimer interface [polypeptide binding]; other site 644801010238 active site 644801010239 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644801010240 catalytic residues [active] 644801010241 substrate binding site [chemical binding]; other site 644801010242 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 644801010243 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 644801010244 G1 box; other site 644801010245 putative GEF interaction site [polypeptide binding]; other site 644801010246 GTP/Mg2+ binding site [chemical binding]; other site 644801010247 Switch I region; other site 644801010248 G2 box; other site 644801010249 G3 box; other site 644801010250 Switch II region; other site 644801010251 G4 box; other site 644801010252 G5 box; other site 644801010253 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 644801010254 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 644801010255 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 644801010256 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 644801010257 active site 644801010258 P-loop; other site 644801010259 phosphorylation site [posttranslational modification] 644801010260 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 644801010261 active site 644801010262 P-loop; other site 644801010263 phosphorylation site [posttranslational modification] 644801010264 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 644801010265 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 644801010266 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 644801010267 putative substrate binding site [chemical binding]; other site 644801010268 putative ATP binding site [chemical binding]; other site 644801010269 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 644801010270 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 644801010271 active site 644801010272 phosphorylation site [posttranslational modification] 644801010273 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; cl00163 644801010274 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 644801010275 dimerization domain swap beta strand [polypeptide binding]; other site 644801010276 regulatory protein interface [polypeptide binding]; other site 644801010277 active site 644801010278 regulatory phosphorylation site [posttranslational modification]; other site 644801010279 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 644801010280 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 644801010281 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 644801010282 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 644801010283 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 644801010284 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 644801010285 DNA binding site [nucleotide binding] 644801010286 domain linker motif; other site 644801010287 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 644801010288 dimerization interface [polypeptide binding]; other site 644801010289 ligand binding site [chemical binding]; other site 644801010290 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 644801010291 homodimer interface [polypeptide binding]; other site 644801010292 chemical substrate binding site [chemical binding]; other site 644801010293 oligomer interface [polypeptide binding]; other site 644801010294 metal binding site [ion binding]; metal-binding site 644801010295 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 644801010296 S-adenosylmethionine binding site [chemical binding]; other site 644801010297 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 644801010298 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 644801010299 Protein of unknown function, DUF606; Region: DUF606; pfam04657 644801010300 SdiA-regulated; Region: SdiA-regulated; pfam06977 644801010301 SdiA-regulated; Region: SdiA-regulated; cd09971 644801010302 putative active site [active] 644801010303 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 644801010304 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 644801010305 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 644801010306 arginine decarboxylase; Provisional; Region: PRK05354 644801010307 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 644801010308 dimer interface [polypeptide binding]; other site 644801010309 active site 644801010310 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644801010311 catalytic residues [active] 644801010312 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 644801010313 translation initiation factor Sui1; Validated; Region: PRK06824 644801010314 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 644801010315 putative rRNA binding site [nucleotide binding]; other site 644801010316 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 644801010317 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 644801010318 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 644801010319 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 644801010320 Type II transport protein GspH; Region: GspH; pfam12019 644801010321 Type II transport protein GspH; Region: GspH; pfam12019 644801010322 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 644801010323 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 644801010324 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 644801010325 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 644801010326 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 644801010327 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 644801010328 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 644801010329 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 644801010330 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 644801010331 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 644801010332 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644801010333 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 644801010334 lipoprotein signal peptidase; Provisional; Region: PRK14787 644801010335 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 644801010336 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644801010337 active site 644801010338 HIGH motif; other site 644801010339 nucleotide binding site [chemical binding]; other site 644801010340 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644801010341 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 644801010342 active site 644801010343 KMSKS motif; other site 644801010344 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 644801010345 tRNA binding surface [nucleotide binding]; other site 644801010346 anticodon binding site; other site 644801010347 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 644801010348 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 644801010349 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 644801010350 active site 644801010351 Riboflavin kinase; Region: Flavokinase; smart00904 644801010352 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 644801010353 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 644801010354 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 644801010355 hypothetical protein; Provisional; Region: PRK10756 644801010356 CreA protein; Region: CreA; pfam05981 644801010357 gamma-glutamyl kinase; Provisional; Region: PRK05429 644801010358 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 644801010359 nucleotide binding site [chemical binding]; other site 644801010360 homotetrameric interface [polypeptide binding]; other site 644801010361 putative phosphate binding site [ion binding]; other site 644801010362 putative allosteric binding site; other site 644801010363 PUA domain; Region: PUA; pfam01472 644801010364 GTPase CgtA; Reviewed; Region: obgE; PRK12298 644801010365 GTP1/OBG; Region: GTP1_OBG; pfam01018 644801010366 Obg GTPase; Region: Obg; cd01898 644801010367 G1 box; other site 644801010368 GTP/Mg2+ binding site [chemical binding]; other site 644801010369 Switch I region; other site 644801010370 G2 box; other site 644801010371 G3 box; other site 644801010372 Switch II region; other site 644801010373 G4 box; other site 644801010374 G5 box; other site 644801010375 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 644801010376 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 644801010377 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 644801010378 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 644801010379 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 644801010380 substrate binding pocket [chemical binding]; other site 644801010381 chain length determination region; other site 644801010382 substrate-Mg2+ binding site; other site 644801010383 catalytic residues [active] 644801010384 aspartate-rich region 1; other site 644801010385 active site lid residues [active] 644801010386 aspartate-rich region 2; other site 644801010387 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 644801010388 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 644801010389 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644801010390 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 644801010391 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 644801010392 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 644801010393 hypothetical protein; Provisional; Region: PRK05208 644801010394 AAA domain; Region: AAA_32; pfam13654 644801010395 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 644801010396 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 644801010397 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 644801010398 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 644801010399 Protein of unknown function (DUF465); Region: DUF465; cl01070 644801010400 DNA repair protein RadA; Provisional; Region: PRK11823 644801010401 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 644801010402 Walker A motif; other site 644801010403 ATP binding site [chemical binding]; other site 644801010404 Walker B motif; other site 644801010405 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 644801010406 PilZ domain; Region: PilZ; pfam07238 644801010407 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 644801010408 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 644801010409 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 644801010410 dimer interface [polypeptide binding]; other site 644801010411 active site 644801010412 glycine-pyridoxal phosphate binding site [chemical binding]; other site 644801010413 folate binding site [chemical binding]; other site 644801010414 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644801010415 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 644801010416 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 644801010417 S-adenosylmethionine binding site [chemical binding]; other site 644801010418 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644801010419 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 644801010420 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 644801010421 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 644801010422 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644801010423 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 644801010424 non-specific DNA binding site [nucleotide binding]; other site 644801010425 salt bridge; other site 644801010426 sequence-specific DNA binding site [nucleotide binding]; other site 644801010427 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 644801010428 helicase superfamily c-terminal domain; Region: HELICc; smart00490 644801010429 putative transposase OrfB; Reviewed; Region: PHA02517 644801010430 HTH-like domain; Region: HTH_21; pfam13276 644801010431 Integrase core domain; Region: rve; pfam00665 644801010432 Integrase core domain; Region: rve_2; pfam13333 644801010433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 644801010434 Transposase; Region: HTH_Tnp_1; pfam01527 644801010435 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 644801010436 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644801010437 Walker A motif; other site 644801010438 ATP binding site [chemical binding]; other site 644801010439 Walker B motif; other site 644801010440 arginine finger; other site 644801010441 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 644801010442 active site 644801010443 NTP binding site [chemical binding]; other site 644801010444 metal binding triad [ion binding]; metal-binding site 644801010445 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644801010446 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 644801010447 non-specific DNA binding site [nucleotide binding]; other site 644801010448 salt bridge; other site 644801010449 sequence-specific DNA binding site [nucleotide binding]; other site 644801010450 Domain of unknown function (DUF955); Region: DUF955; pfam06114 644801010451 Integral membrane protein TerC family; Region: TerC; cl10468 644801010452 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 644801010453 active site 644801010454 DNA binding site [nucleotide binding] 644801010455 Int/Topo IB signature motif; other site 644801010456 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 644801010457 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801010458 Coenzyme A binding pocket [chemical binding]; other site 644801010459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 644801010460 Transposase domain (DUF772); Region: DUF772; pfam05598 644801010461 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 644801010462 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 644801010463 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 644801010464 active site 644801010465 Int/Topo IB signature motif; other site 644801010466 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 644801010467 active site 644801010468 Int/Topo IB signature motif; other site 644801010469 catalytic residues [active] 644801010470 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 644801010471 active site 644801010472 catalytic residues [active] 644801010473 Int/Topo IB signature motif; other site 644801010474 DNA binding site [nucleotide binding] 644801010475 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 644801010476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801010477 Walker A/P-loop; other site 644801010478 ATP binding site [chemical binding]; other site 644801010479 Q-loop/lid; other site 644801010480 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801010481 ABC transporter signature motif; other site 644801010482 Walker B; other site 644801010483 D-loop; other site 644801010484 ABC transporter; Region: ABC_tran_2; pfam12848 644801010485 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801010486 Cache domain; Region: Cache_1; pfam02743 644801010487 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 644801010488 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 644801010489 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 644801010490 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 644801010491 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801010492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801010493 metal binding site [ion binding]; metal-binding site 644801010494 active site 644801010495 I-site; other site 644801010496 glutamate dehydrogenase; Provisional; Region: PRK09414 644801010497 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 644801010498 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 644801010499 NAD(P) binding site [chemical binding]; other site 644801010500 ferredoxin-NADP reductase; Provisional; Region: PRK10926 644801010501 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 644801010502 FAD binding pocket [chemical binding]; other site 644801010503 FAD binding motif [chemical binding]; other site 644801010504 phosphate binding motif [ion binding]; other site 644801010505 beta-alpha-beta structure motif; other site 644801010506 NAD binding pocket [chemical binding]; other site 644801010507 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 644801010508 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 644801010509 S-adenosylmethionine binding site [chemical binding]; other site 644801010510 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 644801010511 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 644801010512 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 644801010513 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644801010514 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 644801010515 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 644801010516 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 644801010517 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 644801010518 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 644801010519 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 644801010520 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 644801010521 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 644801010522 Ligand binding site; other site 644801010523 metal-binding site 644801010524 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 644801010525 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 644801010526 XdhC Rossmann domain; Region: XdhC_C; pfam13478 644801010527 DJ-1 family protein; Region: not_thiJ; TIGR01383 644801010528 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 644801010529 conserved cys residue [active] 644801010530 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 644801010531 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 644801010532 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 644801010533 S-adenosylmethionine binding site [chemical binding]; other site 644801010534 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 644801010535 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 644801010536 active site residue [active] 644801010537 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 644801010538 Prokaryotic cytochrome b561; Region: Ni_hydr_CYTB; pfam01292 644801010539 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 644801010540 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 644801010541 FAD binding pocket [chemical binding]; other site 644801010542 FAD binding motif [chemical binding]; other site 644801010543 phosphate binding motif [ion binding]; other site 644801010544 beta-alpha-beta structure motif; other site 644801010545 NAD(p) ribose binding residues [chemical binding]; other site 644801010546 NAD binding pocket [chemical binding]; other site 644801010547 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 644801010548 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 644801010549 catalytic loop [active] 644801010550 iron binding site [ion binding]; other site 644801010551 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 644801010552 Dihaem cytochrome c; Region: DHC; pfam09626 644801010553 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 644801010554 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801010555 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 644801010556 DNA binding residues [nucleotide binding] 644801010557 Putative zinc-finger; Region: zf-HC2; pfam13490 644801010558 Heavy-metal resistance; Region: Metal_resist; pfam13801 644801010559 dimer interface [polypeptide binding]; other site 644801010560 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 644801010561 Sulfatase; Region: Sulfatase; pfam00884 644801010562 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 644801010563 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 644801010564 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 644801010565 S-adenosylmethionine binding site [chemical binding]; other site 644801010566 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801010567 HAMP domain; Region: HAMP; pfam00672 644801010568 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 644801010569 dimer interface [polypeptide binding]; other site 644801010570 phosphorylation site [posttranslational modification] 644801010571 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 644801010572 ATP binding site [chemical binding]; other site 644801010573 Mg2+ binding site [ion binding]; other site 644801010574 G-X-G motif; other site 644801010575 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 644801010576 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 644801010577 active site 644801010578 phosphorylation site [posttranslational modification] 644801010579 intermolecular recognition site; other site 644801010580 dimerization interface [polypeptide binding]; other site 644801010581 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 644801010582 DNA binding site [nucleotide binding] 644801010583 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 644801010584 Sulfatase; Region: Sulfatase; pfam00884 644801010585 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 644801010586 active site 644801010587 SdiA-regulated; Region: SdiA-regulated; pfam06977 644801010588 SdiA-regulated; Region: SdiA-regulated; cd09971 644801010589 putative active site [active] 644801010590 Uncharacterized conserved protein [Function unknown]; Region: COG3339 644801010591 Thermostable hemolysin; Region: T_hemolysin; pfam12261 644801010592 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 644801010593 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 644801010594 acyl-activating enzyme (AAE) consensus motif; other site 644801010595 putative AMP binding site [chemical binding]; other site 644801010596 putative active site [active] 644801010597 putative CoA binding site [chemical binding]; other site 644801010598 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 644801010599 heme binding pocket [chemical binding]; other site 644801010600 heme ligand [chemical binding]; other site 644801010601 short chain dehydrogenase; Provisional; Region: PRK09072 644801010602 classical (c) SDRs; Region: SDR_c; cd05233 644801010603 NAD(P) binding site [chemical binding]; other site 644801010604 active site 644801010605 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 644801010606 TPR motif; other site 644801010607 binding surface 644801010608 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 644801010609 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 644801010610 active site 644801010611 phosphorylation site [posttranslational modification] 644801010612 intermolecular recognition site; other site 644801010613 dimerization interface [polypeptide binding]; other site 644801010614 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 644801010615 DNA binding site [nucleotide binding] 644801010616 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 644801010617 dimer interface [polypeptide binding]; other site 644801010618 phosphorylation site [posttranslational modification] 644801010619 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801010620 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 644801010621 ATP binding site [chemical binding]; other site 644801010622 Mg2+ binding site [ion binding]; other site 644801010623 G-X-G motif; other site 644801010624 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 644801010625 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 644801010626 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 644801010627 dimer interface [polypeptide binding]; other site 644801010628 putative functional site; other site 644801010629 putative MPT binding site; other site 644801010630 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 644801010631 MPT binding site; other site 644801010632 trimer interface [polypeptide binding]; other site 644801010633 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 644801010634 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 644801010635 FeS/SAM binding site; other site 644801010636 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 644801010637 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 644801010638 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 644801010639 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 644801010640 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 644801010641 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 644801010642 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 644801010643 [4Fe-4S] binding site [ion binding]; other site 644801010644 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801010645 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801010646 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801010647 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 644801010648 molybdopterin cofactor binding site; other site 644801010649 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 644801010650 putative substrate translocation pore; other site 644801010651 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 644801010652 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 644801010653 Ligand Binding Site [chemical binding]; other site 644801010654 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 644801010655 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 644801010656 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 644801010657 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644801010658 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 644801010659 dimerization interface [polypeptide binding]; other site 644801010660 Histidine kinase; Region: HisKA_3; pfam07730 644801010661 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 644801010662 ATP binding site [chemical binding]; other site 644801010663 Mg2+ binding site [ion binding]; other site 644801010664 G-X-G motif; other site 644801010665 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 644801010666 active site 644801010667 phosphorylation site [posttranslational modification] 644801010668 intermolecular recognition site; other site 644801010669 dimerization interface [polypeptide binding]; other site 644801010670 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 644801010671 DNA binding residues [nucleotide binding] 644801010672 dimerization interface [polypeptide binding]; other site 644801010673 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644801010674 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644801010675 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 644801010676 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 644801010677 ligand binding site [chemical binding]; other site 644801010678 flexible hinge region; other site 644801010679 putative switch regulator; other site 644801010680 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 644801010681 non-specific DNA interactions [nucleotide binding]; other site 644801010682 DNA binding site [nucleotide binding] 644801010683 sequence specific DNA binding site [nucleotide binding]; other site 644801010684 putative cAMP binding site [chemical binding]; other site 644801010685 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 644801010686 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 644801010687 ligand binding site [chemical binding]; other site 644801010688 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 644801010689 putative switch regulator; other site 644801010690 non-specific DNA interactions [nucleotide binding]; other site 644801010691 DNA binding site [nucleotide binding] 644801010692 sequence specific DNA binding site [nucleotide binding]; other site 644801010693 putative cAMP binding site [chemical binding]; other site 644801010694 Predicted metal-binding protein [General function prediction only]; Region: COG3019 644801010695 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 644801010696 Predicted metalloprotease [General function prediction only]; Region: COG2321 644801010697 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 644801010698 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 644801010699 active site 644801010700 motif I; other site 644801010701 motif II; other site 644801010702 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 644801010703 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 644801010704 active site 644801010705 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 644801010706 catalytic triad [active] 644801010707 dimer interface [polypeptide binding]; other site 644801010708 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 644801010709 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 644801010710 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 644801010711 putative active site [active] 644801010712 Zn binding site [ion binding]; other site 644801010713 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644801010714 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 644801010715 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644801010716 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644801010717 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 644801010718 DEAD-like helicases superfamily; Region: DEXDc; smart00487 644801010719 ATP binding site [chemical binding]; other site 644801010720 Mg++ binding site [ion binding]; other site 644801010721 motif III; other site 644801010722 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 644801010723 nucleotide binding region [chemical binding]; other site 644801010724 ATP-binding site [chemical binding]; other site 644801010725 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 644801010726 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 644801010727 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644801010728 TrkA-N domain; Region: TrkA_N; pfam02254 644801010729 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 644801010730 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 644801010731 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 644801010732 potential catalytic triad [active] 644801010733 conserved cys residue [active] 644801010734 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 644801010735 Cache domain; Region: Cache_1; pfam02743 644801010736 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 644801010737 dimerization interface [polypeptide binding]; other site 644801010738 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801010739 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801010740 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801010741 dimer interface [polypeptide binding]; other site 644801010742 putative CheW interface [polypeptide binding]; other site 644801010743 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 644801010744 Na2 binding site [ion binding]; other site 644801010745 putative substrate binding site 1 [chemical binding]; other site 644801010746 Na binding site 1 [ion binding]; other site 644801010747 putative substrate binding site 2 [chemical binding]; other site 644801010748 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 644801010749 maleylacetoacetate isomerase; Region: maiA; TIGR01262 644801010750 C-terminal domain interface [polypeptide binding]; other site 644801010751 GSH binding site (G-site) [chemical binding]; other site 644801010752 putative dimer interface [polypeptide binding]; other site 644801010753 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 644801010754 dimer interface [polypeptide binding]; other site 644801010755 N-terminal domain interface [polypeptide binding]; other site 644801010756 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 644801010757 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 644801010758 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 644801010759 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 644801010760 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 644801010761 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 644801010762 dimer interface [polypeptide binding]; other site 644801010763 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 644801010764 active site 644801010765 Fe binding site [ion binding]; other site 644801010766 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 644801010767 Na2 binding site [ion binding]; other site 644801010768 putative substrate binding site 1 [chemical binding]; other site 644801010769 Na binding site 1 [ion binding]; other site 644801010770 putative substrate binding site 2 [chemical binding]; other site 644801010771 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 644801010772 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 644801010773 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 644801010774 NAD binding site [chemical binding]; other site 644801010775 Phe binding site; other site 644801010776 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 644801010777 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 644801010778 dimer interface [polypeptide binding]; other site 644801010779 PYR/PP interface [polypeptide binding]; other site 644801010780 TPP binding site [chemical binding]; other site 644801010781 substrate binding site [chemical binding]; other site 644801010782 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 644801010783 TPP-binding site [chemical binding]; other site 644801010784 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 644801010785 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801010786 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 644801010787 putative DNA binding site [nucleotide binding]; other site 644801010788 putative Zn2+ binding site [ion binding]; other site 644801010789 AsnC family; Region: AsnC_trans_reg; pfam01037 644801010790 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 644801010791 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 644801010792 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 644801010793 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 644801010794 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 644801010795 NAD binding site [chemical binding]; other site 644801010796 homotetramer interface [polypeptide binding]; other site 644801010797 homodimer interface [polypeptide binding]; other site 644801010798 substrate binding site [chemical binding]; other site 644801010799 active site 644801010800 thymidine phosphorylase; Provisional; Region: PRK04350 644801010801 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 644801010802 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 644801010803 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 644801010804 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 644801010805 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 644801010806 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801010807 active site 644801010808 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 644801010809 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 644801010810 putative DNA binding site [nucleotide binding]; other site 644801010811 catalytic residue [active] 644801010812 putative H2TH interface [polypeptide binding]; other site 644801010813 putative catalytic residues [active] 644801010814 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 644801010815 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 644801010816 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 644801010817 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 644801010818 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 644801010819 probable active site [active] 644801010820 Predicted membrane protein [Function unknown]; Region: COG3212 644801010821 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 644801010822 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 644801010823 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 644801010824 Predicted membrane protein [Function unknown]; Region: COG3212 644801010825 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 644801010826 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 644801010827 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 644801010828 active site 644801010829 phosphorylation site [posttranslational modification] 644801010830 intermolecular recognition site; other site 644801010831 dimerization interface [polypeptide binding]; other site 644801010832 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 644801010833 DNA binding site [nucleotide binding] 644801010834 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 644801010835 ATP binding site [chemical binding]; other site 644801010836 Mg2+ binding site [ion binding]; other site 644801010837 G-X-G motif; other site 644801010838 WYL domain; Region: WYL; pfam13280 644801010839 exonuclease subunit SbcD; Provisional; Region: PRK10966 644801010840 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 644801010841 active site 644801010842 metal binding site [ion binding]; metal-binding site 644801010843 DNA binding site [nucleotide binding] 644801010844 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 644801010845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801010846 Walker A/P-loop; other site 644801010847 ATP binding site [chemical binding]; other site 644801010848 Q-loop/lid; other site 644801010849 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801010850 ABC transporter signature motif; other site 644801010851 Walker B; other site 644801010852 D-loop; other site 644801010853 H-loop/switch region; other site 644801010854 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 644801010855 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 644801010856 N-terminal plug; other site 644801010857 ligand-binding site [chemical binding]; other site 644801010858 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 644801010859 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 644801010860 cobalamin binding residues [chemical binding]; other site 644801010861 putative BtuC binding residues; other site 644801010862 dimer interface [polypeptide binding]; other site 644801010863 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 644801010864 dimerization interface [polypeptide binding]; other site 644801010865 active site 644801010866 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 644801010867 catalytic motif [active] 644801010868 Catalytic residue [active] 644801010869 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 644801010870 tetramer interfaces [polypeptide binding]; other site 644801010871 binuclear metal-binding site [ion binding]; other site 644801010872 thiamine monophosphate kinase; Provisional; Region: PRK05731 644801010873 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 644801010874 ATP binding site [chemical binding]; other site 644801010875 dimerization interface [polypeptide binding]; other site 644801010876 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 644801010877 putative RNA binding site [nucleotide binding]; other site 644801010878 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 644801010879 homopentamer interface [polypeptide binding]; other site 644801010880 active site 644801010881 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 644801010882 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 644801010883 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 644801010884 dimerization interface [polypeptide binding]; other site 644801010885 active site 644801010886 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 644801010887 Lumazine binding domain; Region: Lum_binding; pfam00677 644801010888 Lumazine binding domain; Region: Lum_binding; pfam00677 644801010889 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 644801010890 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 644801010891 catalytic motif [active] 644801010892 Zn binding site [ion binding]; other site 644801010893 RibD C-terminal domain; Region: RibD_C; cl17279 644801010894 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 644801010895 ATP cone domain; Region: ATP-cone; pfam03477 644801010896 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 644801010897 Predicted methyltransferase [General function prediction only]; Region: COG3897 644801010898 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 644801010899 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 644801010900 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 644801010901 hypothetical protein; Provisional; Region: PRK11018 644801010902 CPxP motif; other site 644801010903 putative inner membrane protein; Provisional; Region: PRK11099 644801010904 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 644801010905 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 644801010906 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 644801010907 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644801010908 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 644801010909 Walker A/P-loop; other site 644801010910 ATP binding site [chemical binding]; other site 644801010911 Q-loop/lid; other site 644801010912 ABC transporter signature motif; other site 644801010913 Walker B; other site 644801010914 D-loop; other site 644801010915 H-loop/switch region; other site 644801010916 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 644801010917 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644801010918 FtsX-like permease family; Region: FtsX; pfam02687 644801010919 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 644801010920 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644801010921 binding surface 644801010922 TPR motif; other site 644801010923 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 644801010924 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 644801010925 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 644801010926 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644801010927 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644801010928 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 644801010929 OmpW family; Region: OmpW; cl17427 644801010930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801010931 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644801010932 NAD(P) binding site [chemical binding]; other site 644801010933 active site 644801010934 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 644801010935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801010936 NAD(P) binding site [chemical binding]; other site 644801010937 active site 644801010938 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 644801010939 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 644801010940 dimer interface [polypeptide binding]; other site 644801010941 ssDNA binding site [nucleotide binding]; other site 644801010942 tetramer (dimer of dimers) interface [polypeptide binding]; other site 644801010943 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 644801010944 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644801010945 putative substrate translocation pore; other site 644801010946 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 644801010947 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 644801010948 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 644801010949 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 644801010950 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 644801010951 active site 644801010952 Zn binding site [ion binding]; other site 644801010953 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 644801010954 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 644801010955 tetramer interface [polypeptide binding]; other site 644801010956 heme binding pocket [chemical binding]; other site 644801010957 NADPH binding site [chemical binding]; other site 644801010958 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 644801010959 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 644801010960 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 644801010961 alphaNTD homodimer interface [polypeptide binding]; other site 644801010962 alphaNTD - beta interaction site [polypeptide binding]; other site 644801010963 alphaNTD - beta' interaction site [polypeptide binding]; other site 644801010964 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 644801010965 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 644801010966 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 644801010967 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 644801010968 RNA binding surface [nucleotide binding]; other site 644801010969 30S ribosomal protein S11; Validated; Region: PRK05309 644801010970 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 644801010971 30S ribosomal protein S13; Region: bact_S13; TIGR03631 644801010972 Alpha operon ribosome binding site; Psest_3584 644801010973 Ribosomal protein L36 [Translation, ribosomal structure and biogenesis]; Region: RpmJ; COG0257 644801010974 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 644801010975 SecY translocase; Region: SecY; pfam00344 644801010976 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 644801010977 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 644801010978 23S rRNA binding site [nucleotide binding]; other site 644801010979 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 644801010980 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 644801010981 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 644801010982 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 644801010983 5S rRNA interface [nucleotide binding]; other site 644801010984 23S rRNA interface [nucleotide binding]; other site 644801010985 L5 interface [polypeptide binding]; other site 644801010986 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 644801010987 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 644801010988 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 644801010989 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 644801010990 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 644801010991 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 644801010992 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 644801010993 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 644801010994 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 644801010995 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 644801010996 RNA binding site [nucleotide binding]; other site 644801010997 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 644801010998 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 644801010999 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 644801011000 23S rRNA interface [nucleotide binding]; other site 644801011001 putative translocon interaction site; other site 644801011002 signal recognition particle (SRP54) interaction site; other site 644801011003 L23 interface [polypeptide binding]; other site 644801011004 trigger factor interaction site; other site 644801011005 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 644801011006 23S rRNA interface [nucleotide binding]; other site 644801011007 5S rRNA interface [nucleotide binding]; other site 644801011008 putative antibiotic binding site [chemical binding]; other site 644801011009 L25 interface [polypeptide binding]; other site 644801011010 L27 interface [polypeptide binding]; other site 644801011011 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 644801011012 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 644801011013 G-X-X-G motif; other site 644801011014 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 644801011015 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 644801011016 protein-rRNA interface [nucleotide binding]; other site 644801011017 putative translocon binding site; other site 644801011018 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 644801011019 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 644801011020 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 644801011021 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 644801011022 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 644801011023 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 644801011024 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 644801011025 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 644801011026 elongation factor Tu; Reviewed; Region: PRK00049 644801011027 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 644801011028 G1 box; other site 644801011029 GEF interaction site [polypeptide binding]; other site 644801011030 GTP/Mg2+ binding site [chemical binding]; other site 644801011031 Switch I region; other site 644801011032 G2 box; other site 644801011033 G3 box; other site 644801011034 Switch II region; other site 644801011035 G4 box; other site 644801011036 G5 box; other site 644801011037 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 644801011038 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 644801011039 Antibiotic Binding Site [chemical binding]; other site 644801011040 elongation factor G; Reviewed; Region: PRK00007 644801011041 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 644801011042 G1 box; other site 644801011043 putative GEF interaction site [polypeptide binding]; other site 644801011044 GTP/Mg2+ binding site [chemical binding]; other site 644801011045 Switch I region; other site 644801011046 G2 box; other site 644801011047 G3 box; other site 644801011048 Switch II region; other site 644801011049 G4 box; other site 644801011050 G5 box; other site 644801011051 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 644801011052 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 644801011053 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 644801011054 30S ribosomal protein S7; Validated; Region: PRK05302 644801011055 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 644801011056 S17 interaction site [polypeptide binding]; other site 644801011057 S8 interaction site; other site 644801011058 16S rRNA interaction site [nucleotide binding]; other site 644801011059 streptomycin interaction site [chemical binding]; other site 644801011060 23S rRNA interaction site [nucleotide binding]; other site 644801011061 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 644801011062 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 644801011063 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 644801011064 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 644801011065 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 644801011066 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 644801011067 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 644801011068 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 644801011069 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 644801011070 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 644801011071 DNA binding site [nucleotide binding] 644801011072 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 644801011073 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 644801011074 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 644801011075 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 644801011076 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 644801011077 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 644801011078 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 644801011079 RPB3 interaction site [polypeptide binding]; other site 644801011080 RPB1 interaction site [polypeptide binding]; other site 644801011081 RPB11 interaction site [polypeptide binding]; other site 644801011082 RPB10 interaction site [polypeptide binding]; other site 644801011083 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 644801011084 core dimer interface [polypeptide binding]; other site 644801011085 peripheral dimer interface [polypeptide binding]; other site 644801011086 L10 interface [polypeptide binding]; other site 644801011087 L11 interface [polypeptide binding]; other site 644801011088 putative EF-Tu interaction site [polypeptide binding]; other site 644801011089 putative EF-G interaction site [polypeptide binding]; other site 644801011090 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 644801011091 23S rRNA interface [nucleotide binding]; other site 644801011092 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 644801011093 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 644801011094 mRNA/rRNA interface [nucleotide binding]; other site 644801011095 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 644801011096 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 644801011097 23S rRNA interface [nucleotide binding]; other site 644801011098 L7/L12 interface [polypeptide binding]; other site 644801011099 putative thiostrepton binding site; other site 644801011100 L25 interface [polypeptide binding]; other site 644801011101 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 644801011102 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 644801011103 putative homodimer interface [polypeptide binding]; other site 644801011104 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 644801011105 heterodimer interface [polypeptide binding]; other site 644801011106 homodimer interface [polypeptide binding]; other site 644801011107 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 644801011108 elongation factor Tu; Reviewed; Region: PRK00049 644801011109 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 644801011110 G1 box; other site 644801011111 GEF interaction site [polypeptide binding]; other site 644801011112 GTP/Mg2+ binding site [chemical binding]; other site 644801011113 Switch I region; other site 644801011114 G2 box; other site 644801011115 G3 box; other site 644801011116 Switch II region; other site 644801011117 G4 box; other site 644801011118 G5 box; other site 644801011119 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 644801011120 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 644801011121 Antibiotic Binding Site [chemical binding]; other site 644801011122 Sporulation related domain; Region: SPOR; cl10051 644801011123 Sporulation related domain; Region: SPOR; cl10051 644801011124 pantothenate kinase; Reviewed; Region: PRK13322 644801011125 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 644801011126 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 644801011127 putative Zn2+ binding site [ion binding]; other site 644801011128 putative DNA binding site [nucleotide binding]; other site 644801011129 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 644801011130 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 644801011131 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 644801011132 active site 644801011133 HIGH motif; other site 644801011134 dimer interface [polypeptide binding]; other site 644801011135 KMSKS motif; other site 644801011136 putative peptidase; Provisional; Region: PRK11649 644801011137 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 644801011138 Peptidase family M23; Region: Peptidase_M23; pfam01551 644801011139 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 644801011140 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 644801011141 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 644801011142 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 644801011143 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 644801011144 Protein of unknown function (DUF805); Region: DUF805; pfam05656 644801011145 Ycf46; Provisional; Region: ycf46; CHL00195 644801011146 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 644801011147 Walker A motif; other site 644801011148 ATP binding site [chemical binding]; other site 644801011149 Walker B motif; other site 644801011150 arginine finger; other site 644801011151 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 644801011152 nucleotide binding site/active site [active] 644801011153 HIT family signature motif; other site 644801011154 catalytic residue [active] 644801011155 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 644801011156 diiron binding motif [ion binding]; other site 644801011157 OsmC-like protein; Region: OsmC; cl00767 644801011158 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 644801011159 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 644801011160 ligand binding site [chemical binding]; other site 644801011161 flexible hinge region; other site 644801011162 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 644801011163 putative switch regulator; other site 644801011164 non-specific DNA interactions [nucleotide binding]; other site 644801011165 DNA binding site [nucleotide binding] 644801011166 sequence specific DNA binding site [nucleotide binding]; other site 644801011167 putative cAMP binding site [chemical binding]; other site 644801011168 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 644801011169 active site 644801011170 ribulose/triose binding site [chemical binding]; other site 644801011171 phosphate binding site [ion binding]; other site 644801011172 substrate (anthranilate) binding pocket [chemical binding]; other site 644801011173 product (indole) binding pocket [chemical binding]; other site 644801011174 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 644801011175 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 644801011176 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 644801011177 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 644801011178 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 644801011179 glutamine binding [chemical binding]; other site 644801011180 catalytic triad [active] 644801011181 anthranilate synthase component I; Provisional; Region: PRK13565 644801011182 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 644801011183 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 644801011184 phosphoglycolate phosphatase; Provisional; Region: PRK13222 644801011185 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 644801011186 motif II; other site 644801011187 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 644801011188 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 644801011189 substrate binding site [chemical binding]; other site 644801011190 hexamer interface [polypeptide binding]; other site 644801011191 metal binding site [ion binding]; metal-binding site 644801011192 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 644801011193 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 644801011194 inhibitor-cofactor binding pocket; inhibition site 644801011195 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801011196 catalytic residue [active] 644801011197 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 644801011198 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 644801011199 tetramerization interface [polypeptide binding]; other site 644801011200 NAD(P) binding site [chemical binding]; other site 644801011201 catalytic residues [active] 644801011202 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 644801011203 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801011204 dimer interface [polypeptide binding]; other site 644801011205 conserved gate region; other site 644801011206 putative PBP binding loops; other site 644801011207 ABC-ATPase subunit interface; other site 644801011208 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801011209 dimer interface [polypeptide binding]; other site 644801011210 conserved gate region; other site 644801011211 putative PBP binding loops; other site 644801011212 ABC-ATPase subunit interface; other site 644801011213 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 644801011214 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 644801011215 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 644801011216 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 644801011217 Walker A/P-loop; other site 644801011218 ATP binding site [chemical binding]; other site 644801011219 Q-loop/lid; other site 644801011220 ABC transporter signature motif; other site 644801011221 Walker B; other site 644801011222 D-loop; other site 644801011223 H-loop/switch region; other site 644801011224 TOBE domain; Region: TOBE_2; pfam08402 644801011225 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644801011226 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 644801011227 active site 644801011228 phosphorylation site [posttranslational modification] 644801011229 intermolecular recognition site; other site 644801011230 dimerization interface [polypeptide binding]; other site 644801011231 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 644801011232 DNA binding residues [nucleotide binding] 644801011233 dimerization interface [polypeptide binding]; other site 644801011234 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 644801011235 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 644801011236 substrate binding pocket [chemical binding]; other site 644801011237 membrane-bound complex binding site; other site 644801011238 hinge residues; other site 644801011239 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644801011240 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 644801011241 putative active site [active] 644801011242 heme pocket [chemical binding]; other site 644801011243 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 644801011244 putative active site [active] 644801011245 heme pocket [chemical binding]; other site 644801011246 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 644801011247 Histidine kinase; Region: HisKA_3; pfam07730 644801011248 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 644801011249 ATP binding site [chemical binding]; other site 644801011250 Mg2+ binding site [ion binding]; other site 644801011251 G-X-G motif; other site 644801011252 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 644801011253 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644801011254 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 644801011255 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 644801011256 putative metal binding site [ion binding]; other site 644801011257 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 644801011258 HSP70 interaction site [polypeptide binding]; other site 644801011259 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 644801011260 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 644801011261 Substrate binding site; other site 644801011262 metal-binding site 644801011263 Phosphotransferase enzyme family; Region: APH; pfam01636 644801011264 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 644801011265 active site 644801011266 ATP binding site [chemical binding]; other site 644801011267 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 644801011268 OstA-like protein; Region: OstA; cl00844 644801011269 Organic solvent tolerance protein; Region: OstA_C; pfam04453 644801011270 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 644801011271 SurA N-terminal domain; Region: SurA_N; pfam09312 644801011272 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 644801011273 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 644801011274 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 644801011275 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 644801011276 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 644801011277 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 644801011278 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 644801011279 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 644801011280 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 644801011281 active site 644801011282 metal binding site [ion binding]; metal-binding site 644801011283 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 644801011284 active site residue [active] 644801011285 PrkA family serine protein kinase; Provisional; Region: PRK15455 644801011286 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 644801011287 hypothetical protein; Provisional; Region: PRK05325 644801011288 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 644801011289 SpoVR family protein; Provisional; Region: PRK11767 644801011290 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 644801011291 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 644801011292 active site 644801011293 NTP binding site [chemical binding]; other site 644801011294 metal binding triad [ion binding]; metal-binding site 644801011295 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 644801011296 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 644801011297 catalytic center binding site [active] 644801011298 ATP binding site [chemical binding]; other site 644801011299 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 644801011300 homooctamer interface [polypeptide binding]; other site 644801011301 active site 644801011302 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 644801011303 UGMP family protein; Validated; Region: PRK09604 644801011304 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 644801011305 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 644801011306 DNA primase, catalytic core; Region: dnaG; TIGR01391 644801011307 CHC2 zinc finger; Region: zf-CHC2; pfam01807 644801011308 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 644801011309 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 644801011310 active site 644801011311 metal binding site [ion binding]; metal-binding site 644801011312 interdomain interaction site; other site 644801011313 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 644801011314 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 644801011315 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 644801011316 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 644801011317 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 644801011318 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 644801011319 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801011320 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644801011321 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 644801011322 DNA binding residues [nucleotide binding] 644801011323 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 644801011324 transmembrane helices; other site 644801011325 TrkA-C domain; Region: TrkA_C; pfam02080 644801011326 TrkA-C domain; Region: TrkA_C; pfam02080 644801011327 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644801011328 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 644801011329 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 644801011330 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 644801011331 homodimer interface [polypeptide binding]; other site 644801011332 substrate-cofactor binding pocket; other site 644801011333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801011334 catalytic residue [active] 644801011335 thioredoxin 2; Provisional; Region: PRK10996 644801011336 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 644801011337 catalytic residues [active] 644801011338 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 644801011339 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 644801011340 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644801011341 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 644801011342 putative acyl-acceptor binding pocket; other site 644801011343 Phosphopantetheine attachment site; Region: PP-binding; cl09936 644801011344 acyl carrier protein; Provisional; Region: PRK05350 644801011345 Predicted membrane protein [Function unknown]; Region: COG4648 644801011346 AMP-binding enzyme; Region: AMP-binding; pfam00501 644801011347 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644801011348 active site 644801011349 CoA binding site [chemical binding]; other site 644801011350 AMP binding site [chemical binding]; other site 644801011351 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 644801011352 active site 2 [active] 644801011353 dimer interface [polypeptide binding]; other site 644801011354 active site 1 [active] 644801011355 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644801011356 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644801011357 Ligand binding site; other site 644801011358 Putative Catalytic site; other site 644801011359 DXD motif; other site 644801011360 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 644801011361 putative acyl-acceptor binding pocket; other site 644801011362 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 644801011363 active sites [active] 644801011364 tetramer interface [polypeptide binding]; other site 644801011365 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 644801011366 active site 644801011367 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 644801011368 Predicted exporter [General function prediction only]; Region: COG4258 644801011369 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 644801011370 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 644801011371 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 644801011372 dimer interface [polypeptide binding]; other site 644801011373 active site 644801011374 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 644801011375 putative active site 1 [active] 644801011376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801011377 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 644801011378 NAD(P) binding site [chemical binding]; other site 644801011379 active site 644801011380 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 644801011381 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 644801011382 dimer interface [polypeptide binding]; other site 644801011383 active site 644801011384 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 644801011385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801011386 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 644801011387 dimerization interface [polypeptide binding]; other site 644801011388 substrate binding pocket [chemical binding]; other site 644801011389 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 644801011390 putative substrate translocation pore; other site 644801011391 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 644801011392 substrate binding site [chemical binding]; other site 644801011393 active site 644801011394 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 644801011395 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 644801011396 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644801011397 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 644801011398 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 644801011399 active site 644801011400 dimer interface [polypeptide binding]; other site 644801011401 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 644801011402 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 644801011403 active site 644801011404 FMN binding site [chemical binding]; other site 644801011405 substrate binding site [chemical binding]; other site 644801011406 3Fe-4S cluster binding site [ion binding]; other site 644801011407 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 644801011408 domain interface; other site 644801011409 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 644801011410 Sporulation related domain; Region: SPOR; pfam05036 644801011411 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 644801011412 active site 644801011413 dimer interface [polypeptide binding]; other site 644801011414 metal binding site [ion binding]; metal-binding site 644801011415 shikimate kinase; Reviewed; Region: aroK; PRK00131 644801011416 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 644801011417 ADP binding site [chemical binding]; other site 644801011418 magnesium binding site [ion binding]; other site 644801011419 putative shikimate binding site; other site 644801011420 AMIN domain; Region: AMIN; pfam11741 644801011421 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 644801011422 Secretin and TonB N terminus short domain; Region: STN; smart00965 644801011423 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 644801011424 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 644801011425 Pilus assembly protein, PilP; Region: PilP; pfam04351 644801011426 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 644801011427 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 644801011428 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 644801011429 Competence protein A; Region: Competence_A; pfam11104 644801011430 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 644801011431 nucleotide binding site [chemical binding]; other site 644801011432 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 644801011433 Transglycosylase; Region: Transgly; pfam00912 644801011434 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 644801011435 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 644801011436 Malic enzyme, N-terminal domain; Region: malic; pfam00390 644801011437 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 644801011438 putative NAD(P) binding site [chemical binding]; other site 644801011439 Staphylococcal nuclease homologues; Region: SNc; smart00318 644801011440 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 644801011441 Catalytic site; other site 644801011442 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 644801011443 primosome assembly protein PriA; Validated; Region: PRK05580 644801011444 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 644801011445 ATP binding site [chemical binding]; other site 644801011446 putative Mg++ binding site [ion binding]; other site 644801011447 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 644801011448 helicase superfamily c-terminal domain; Region: HELICc; smart00490 644801011449 ATP-binding site [chemical binding]; other site 644801011450 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 644801011451 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 644801011452 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 644801011453 active site 644801011454 HIGH motif; other site 644801011455 KMSK motif region; other site 644801011456 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 644801011457 tRNA binding surface [nucleotide binding]; other site 644801011458 anticodon binding site; other site 644801011459 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 644801011460 Sporulation related domain; Region: SPOR; pfam05036 644801011461 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 644801011462 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 644801011463 catalytic loop [active] 644801011464 iron binding site [ion binding]; other site 644801011465 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 644801011466 FAD binding pocket [chemical binding]; other site 644801011467 FAD binding motif [chemical binding]; other site 644801011468 phosphate binding motif [ion binding]; other site 644801011469 beta-alpha-beta structure motif; other site 644801011470 NAD binding pocket [chemical binding]; other site 644801011471 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 644801011472 transcription termination factor Rho; Provisional; Region: rho; PRK09376 644801011473 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 644801011474 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 644801011475 RNA binding site [nucleotide binding]; other site 644801011476 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 644801011477 multimer interface [polypeptide binding]; other site 644801011478 Walker A motif; other site 644801011479 ATP binding site [chemical binding]; other site 644801011480 Walker B motif; other site 644801011481 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 644801011482 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644801011483 catalytic residues [active] 644801011484 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 644801011485 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 644801011486 polyphosphate kinase; Provisional; Region: PRK05443 644801011487 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 644801011488 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 644801011489 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 644801011490 putative active site [active] 644801011491 catalytic site [active] 644801011492 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 644801011493 putative domain interface [polypeptide binding]; other site 644801011494 putative active site [active] 644801011495 catalytic site [active] 644801011496 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 644801011497 dimer interface [polypeptide binding]; other site 644801011498 active site 644801011499 aspartate-rich active site metal binding site; other site 644801011500 allosteric magnesium binding site [ion binding]; other site 644801011501 Schiff base residues; other site 644801011502 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 644801011503 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 644801011504 conserved cys residue [active] 644801011505 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 644801011506 CoenzymeA binding site [chemical binding]; other site 644801011507 subunit interaction site [polypeptide binding]; other site 644801011508 PHB binding site; other site 644801011509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 644801011510 LysE type translocator; Region: LysE; cl00565 644801011511 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 644801011512 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644801011513 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 644801011514 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801011515 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801011516 ABC transporter; Region: ABC_tran_2; pfam12848 644801011517 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644801011518 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 644801011519 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 644801011520 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 644801011521 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 644801011522 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 644801011523 HemY protein N-terminus; Region: HemY_N; pfam07219 644801011524 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 644801011525 uroporphyrinogen-III synthase; Validated; Region: PRK05752 644801011526 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 644801011527 active site 644801011528 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 644801011529 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 644801011530 domain interfaces; other site 644801011531 active site 644801011532 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 644801011533 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 644801011534 active site 644801011535 phosphorylation site [posttranslational modification] 644801011536 intermolecular recognition site; other site 644801011537 dimerization interface [polypeptide binding]; other site 644801011538 LytTr DNA-binding domain; Region: LytTR; pfam04397 644801011539 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 644801011540 Histidine kinase; Region: His_kinase; pfam06580 644801011541 argininosuccinate lyase; Provisional; Region: PRK00855 644801011542 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 644801011543 active sites [active] 644801011544 tetramer interface [polypeptide binding]; other site 644801011545 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 644801011546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801011547 Coenzyme A binding pocket [chemical binding]; other site 644801011548 NnrS protein; Region: NnrS; pfam05940 644801011549 TIGR02647 family protein; Region: DNA 644801011550 adenylate cyclase; Provisional; Region: cyaA; PRK09450 644801011551 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 644801011552 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 644801011553 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 644801011554 DNA binding residues [nucleotide binding] 644801011555 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 644801011556 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 644801011557 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 644801011558 putative iron binding site [ion binding]; other site 644801011559 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 644801011560 diaminopimelate decarboxylase; Region: lysA; TIGR01048 644801011561 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 644801011562 active site 644801011563 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644801011564 substrate binding site [chemical binding]; other site 644801011565 catalytic residues [active] 644801011566 dimer interface [polypeptide binding]; other site 644801011567 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 644801011568 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 644801011569 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 644801011570 Protein of unknown function, DUF484; Region: DUF484; pfam04340 644801011571 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 644801011572 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 644801011573 active site 644801011574 DNA binding site [nucleotide binding] 644801011575 Int/Topo IB signature motif; other site 644801011576 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 644801011577 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 644801011578 motif II; other site 644801011579 Uncharacterized conserved protein [Function unknown]; Region: COG0432 644801011580 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 644801011581 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 644801011582 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 644801011583 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644801011584 Membrane fusogenic activity; Region: BMFP; pfam04380 644801011585 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 644801011586 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 644801011587 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 644801011588 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 644801011589 Walker A motif; other site 644801011590 ATP binding site [chemical binding]; other site 644801011591 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 644801011592 BCCT family transporter; Region: BCCT; cl00569 644801011593 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801011594 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801011595 metal binding site [ion binding]; metal-binding site 644801011596 active site 644801011597 I-site; other site 644801011598 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 644801011599 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 644801011600 Part of AAA domain; Region: AAA_19; pfam13245 644801011601 Family description; Region: UvrD_C_2; pfam13538 644801011602 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 644801011603 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 644801011604 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 644801011605 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 644801011606 Bacterial transcriptional regulator; Region: IclR; pfam01614 644801011607 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 644801011608 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 644801011609 tetrameric interface [polypeptide binding]; other site 644801011610 NAD binding site [chemical binding]; other site 644801011611 catalytic residues [active] 644801011612 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 644801011613 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 644801011614 putative active site [active] 644801011615 metal binding site [ion binding]; metal-binding site 644801011616 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 644801011617 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 644801011618 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 644801011619 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 644801011620 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 644801011621 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 644801011622 active site 644801011623 catalytic site [active] 644801011624 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 644801011625 trehalose synthase; Region: treS_nterm; TIGR02456 644801011626 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 644801011627 active site 644801011628 catalytic site [active] 644801011629 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 644801011630 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801011631 active site 644801011632 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 644801011633 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 644801011634 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 644801011635 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 644801011636 non-specific DNA binding site [nucleotide binding]; other site 644801011637 salt bridge; other site 644801011638 sequence-specific DNA binding site [nucleotide binding]; other site 644801011639 Cupin domain; Region: Cupin_2; pfam07883 644801011640 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 644801011641 homotrimer interaction site [polypeptide binding]; other site 644801011642 putative active site [active] 644801011643 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 644801011644 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644801011645 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644801011646 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 644801011647 putative DNA binding site [nucleotide binding]; other site 644801011648 putative Zn2+ binding site [ion binding]; other site 644801011649 AsnC family; Region: AsnC_trans_reg; pfam01037 644801011650 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 644801011651 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 644801011652 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 644801011653 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 644801011654 putative active site [active] 644801011655 catalytic site [active] 644801011656 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 644801011657 putative active site [active] 644801011658 catalytic site [active] 644801011659 Protein of unknown function (DUF962); Region: DUF962; cl01879 644801011660 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801011661 dimer interface [polypeptide binding]; other site 644801011662 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 644801011663 putative CheW interface [polypeptide binding]; other site 644801011664 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 644801011665 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644801011666 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644801011667 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644801011668 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 644801011669 CoenzymeA binding site [chemical binding]; other site 644801011670 subunit interaction site [polypeptide binding]; other site 644801011671 PHB binding site; other site 644801011672 hypothetical protein; Reviewed; Region: PRK00024 644801011673 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 644801011674 MPN+ (JAMM) motif; other site 644801011675 Zinc-binding site [ion binding]; other site 644801011676 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 644801011677 Flavoprotein; Region: Flavoprotein; pfam02441 644801011678 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 644801011679 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 644801011680 trimer interface [polypeptide binding]; other site 644801011681 active site 644801011682 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 644801011683 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 644801011684 active site 644801011685 substrate binding site [chemical binding]; other site 644801011686 metal binding site [ion binding]; metal-binding site 644801011687 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 644801011688 feedback inhibition sensing region; other site 644801011689 homohexameric interface [polypeptide binding]; other site 644801011690 nucleotide binding site [chemical binding]; other site 644801011691 N-acetyl-L-glutamate binding site [chemical binding]; other site 644801011692 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 644801011693 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 644801011694 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801011695 active site 644801011696 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 644801011697 putative active site [active] 644801011698 putative catalytic site [active] 644801011699 putative DNA binding site [nucleotide binding]; other site 644801011700 putative phosphate binding site [ion binding]; other site 644801011701 metal binding site A [ion binding]; metal-binding site 644801011702 putative AP binding site [nucleotide binding]; other site 644801011703 putative metal binding site B [ion binding]; other site 644801011704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 644801011705 ribonuclease PH; Reviewed; Region: rph; PRK00173 644801011706 Ribonuclease PH; Region: RNase_PH_bact; cd11362 644801011707 hexamer interface [polypeptide binding]; other site 644801011708 active site 644801011709 hypothetical protein; Provisional; Region: PRK11820 644801011710 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 644801011711 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 644801011712 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 644801011713 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 644801011714 catalytic site [active] 644801011715 G-X2-G-X-G-K; other site 644801011716 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 644801011717 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 644801011718 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644801011719 Zn2+ binding site [ion binding]; other site 644801011720 Mg2+ binding site [ion binding]; other site 644801011721 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 644801011722 synthetase active site [active] 644801011723 NTP binding site [chemical binding]; other site 644801011724 metal binding site [ion binding]; metal-binding site 644801011725 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 644801011726 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 644801011727 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 644801011728 homotrimer interaction site [polypeptide binding]; other site 644801011729 putative active site [active] 644801011730 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801011731 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644801011732 ligand binding site [chemical binding]; other site 644801011733 FecR protein; Region: FecR; pfam04773 644801011734 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 644801011735 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644801011736 Walker A motif; other site 644801011737 ATP binding site [chemical binding]; other site 644801011738 Walker B motif; other site 644801011739 arginine finger; other site 644801011740 Peptidase family M41; Region: Peptidase_M41; pfam01434 644801011741 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 644801011742 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 644801011743 conserved cys residue [active] 644801011744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801011745 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 644801011746 Repair protein; Region: Repair_PSII; cl01535 644801011747 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 644801011748 Repair protein; Region: Repair_PSII; pfam04536 644801011749 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 644801011750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801011751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801011752 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 644801011753 putative effector binding pocket; other site 644801011754 dimerization interface [polypeptide binding]; other site 644801011755 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 644801011756 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 644801011757 putative NAD(P) binding site [chemical binding]; other site 644801011758 dimer interface [polypeptide binding]; other site 644801011759 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 644801011760 CoA-transferase family III; Region: CoA_transf_3; pfam02515 644801011761 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 644801011762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801011763 FAD binding site [chemical binding]; other site 644801011764 substrate binding pocket [chemical binding]; other site 644801011765 catalytic base [active] 644801011766 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 644801011767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801011768 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 644801011769 dimerization interface [polypeptide binding]; other site 644801011770 substrate binding pocket [chemical binding]; other site 644801011771 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 644801011772 IHF dimer interface [polypeptide binding]; other site 644801011773 IHF - DNA interface [nucleotide binding]; other site 644801011774 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 644801011775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644801011776 Rubredoxin [Energy production and conversion]; Region: COG1773 644801011777 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 644801011778 iron binding site [ion binding]; other site 644801011779 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 644801011780 L-lactate permease; Region: Lactate_perm; cl00701 644801011781 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 644801011782 active site 644801011783 Domain of unknown function (DUF336); Region: DUF336; cl01249 644801011784 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 644801011785 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 644801011786 Cysteine-rich domain; Region: CCG; pfam02754 644801011787 Cysteine-rich domain; Region: CCG; pfam02754 644801011788 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 644801011789 FAD binding domain; Region: FAD_binding_4; pfam01565 644801011790 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 644801011791 FAD binding domain; Region: FAD_binding_4; pfam01565 644801011792 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 644801011793 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644801011794 DNA-binding site [nucleotide binding]; DNA binding site 644801011795 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 644801011796 Chorismate lyase; Region: Chor_lyase; cl01230 644801011797 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 644801011798 UbiA prenyltransferase family; Region: UbiA; pfam01040 644801011799 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 644801011800 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 644801011801 active site 644801011802 phosphorylation site [posttranslational modification] 644801011803 intermolecular recognition site; other site 644801011804 dimerization interface [polypeptide binding]; other site 644801011805 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 644801011806 DNA binding site [nucleotide binding] 644801011807 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 644801011808 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644801011809 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 644801011810 putative active site [active] 644801011811 heme pocket [chemical binding]; other site 644801011812 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 644801011813 dimer interface [polypeptide binding]; other site 644801011814 phosphorylation site [posttranslational modification] 644801011815 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 644801011816 ATP binding site [chemical binding]; other site 644801011817 Mg2+ binding site [ion binding]; other site 644801011818 G-X-G motif; other site 644801011819 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 644801011820 Domain of unknown function DUF21; Region: DUF21; pfam01595 644801011821 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 644801011822 Transporter associated domain; Region: CorC_HlyC; smart01091 644801011823 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 644801011824 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 644801011825 Peptidase family M23; Region: Peptidase_M23; pfam01551 644801011826 Response regulator receiver domain; Region: Response_reg; pfam00072 644801011827 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 644801011828 active site 644801011829 phosphorylation site [posttranslational modification] 644801011830 intermolecular recognition site; other site 644801011831 dimerization interface [polypeptide binding]; other site 644801011832 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 644801011833 Ligand Binding Site [chemical binding]; other site 644801011834 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 644801011835 Ligand Binding Site [chemical binding]; other site 644801011836 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644801011837 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 644801011838 putative ligand binding site [chemical binding]; other site 644801011839 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644801011840 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 644801011841 Walker A/P-loop; other site 644801011842 ATP binding site [chemical binding]; other site 644801011843 Q-loop/lid; other site 644801011844 ABC transporter signature motif; other site 644801011845 Walker B; other site 644801011846 D-loop; other site 644801011847 H-loop/switch region; other site 644801011848 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644801011849 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644801011850 Walker A/P-loop; other site 644801011851 ATP binding site [chemical binding]; other site 644801011852 Q-loop/lid; other site 644801011853 ABC transporter signature motif; other site 644801011854 Walker B; other site 644801011855 D-loop; other site 644801011856 H-loop/switch region; other site 644801011857 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644801011858 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 644801011859 TM-ABC transporter signature motif; other site 644801011860 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 644801011861 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 644801011862 TM-ABC transporter signature motif; other site 644801011863 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644801011864 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 644801011865 P-loop; other site 644801011866 Magnesium ion binding site [ion binding]; other site 644801011867 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 644801011868 Magnesium ion binding site [ion binding]; other site 644801011869 thymidylate synthase; Reviewed; Region: thyA; PRK01827 644801011870 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 644801011871 dimerization interface [polypeptide binding]; other site 644801011872 active site 644801011873 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 644801011874 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644801011875 NRDE protein; Region: NRDE; cl01315 644801011876 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 644801011877 GAF domain; Region: GAF; pfam01590 644801011878 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 644801011879 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 644801011880 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 644801011881 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 644801011882 putative active site [active] 644801011883 Ap4A binding site [chemical binding]; other site 644801011884 nudix motif; other site 644801011885 putative metal binding site [ion binding]; other site 644801011886 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 644801011887 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 644801011888 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 644801011889 threonine dehydratase; Reviewed; Region: PRK09224 644801011890 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 644801011891 tetramer interface [polypeptide binding]; other site 644801011892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801011893 catalytic residue [active] 644801011894 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 644801011895 putative Ile/Val binding site [chemical binding]; other site 644801011896 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 644801011897 putative Ile/Val binding site [chemical binding]; other site 644801011898 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 644801011899 tetramer (dimer of dimers) interface [polypeptide binding]; other site 644801011900 active site 644801011901 dimer interface [polypeptide binding]; other site 644801011902 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 644801011903 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 644801011904 SdiA-regulated; Region: SdiA-regulated; pfam06977 644801011905 SdiA-regulated; Region: SdiA-regulated; cd09971 644801011906 putative active site [active] 644801011907 SdiA-regulated; Region: SdiA-regulated; pfam06977 644801011908 SdiA-regulated; Region: SdiA-regulated; cd09971 644801011909 putative active site [active] 644801011910 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 644801011911 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 644801011912 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 644801011913 FAD binding domain; Region: FAD_binding_4; pfam01565 644801011914 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 644801011915 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 644801011916 ligand binding site [chemical binding]; other site 644801011917 NAD binding site [chemical binding]; other site 644801011918 tetramer interface [polypeptide binding]; other site 644801011919 catalytic site [active] 644801011920 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 644801011921 L-serine binding site [chemical binding]; other site 644801011922 ACT domain interface; other site 644801011923 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 644801011924 OPT oligopeptide transporter protein; Region: OPT; cl14607 644801011925 OPT oligopeptide transporter protein; Region: OPT; cl14607 644801011926 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644801011927 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 644801011928 DNA binding residues [nucleotide binding] 644801011929 dimerization interface [polypeptide binding]; other site 644801011930 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801011931 Curlin associated repeat; Region: Curlin_rpt; pfam07012 644801011932 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801011933 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 644801011934 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 644801011935 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 644801011936 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 644801011937 active site 644801011938 phosphorylation site [posttranslational modification] 644801011939 intermolecular recognition site; other site 644801011940 dimerization interface [polypeptide binding]; other site 644801011941 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 644801011942 DNA binding site [nucleotide binding] 644801011943 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 644801011944 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 644801011945 dimer interface [polypeptide binding]; other site 644801011946 phosphorylation site [posttranslational modification] 644801011947 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 644801011948 ATP binding site [chemical binding]; other site 644801011949 Mg2+ binding site [ion binding]; other site 644801011950 G-X-G motif; other site 644801011951 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 644801011952 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 644801011953 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 644801011954 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 644801011955 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 644801011956 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 644801011957 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 644801011958 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 644801011959 Carbon starvation protein CstA; Region: CstA; pfam02554 644801011960 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 644801011961 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 644801011962 DTAP/Switch II; other site 644801011963 Switch I; other site 644801011964 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 644801011965 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 644801011966 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644801011967 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644801011968 active site 644801011969 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 644801011970 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 644801011971 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801011972 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801011973 metal binding site [ion binding]; metal-binding site 644801011974 active site 644801011975 I-site; other site 644801011976 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 644801011977 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 644801011978 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 644801011979 FAD binding pocket [chemical binding]; other site 644801011980 conserved FAD binding motif [chemical binding]; other site 644801011981 phosphate binding motif [ion binding]; other site 644801011982 beta-alpha-beta structure motif; other site 644801011983 NAD binding pocket [chemical binding]; other site 644801011984 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 644801011985 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 644801011986 [4Fe-4S] binding site [ion binding]; other site 644801011987 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 644801011988 molybdopterin cofactor binding site; other site 644801011989 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 644801011990 molybdopterin cofactor binding site; other site 644801011991 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 644801011992 Cytochrome c553 [Energy production and conversion]; Region: COG2863 644801011993 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 644801011994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 644801011995 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 644801011996 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 644801011997 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801011998 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 644801011999 active site 644801012000 phosphorylation site [posttranslational modification] 644801012001 intermolecular recognition site; other site 644801012002 dimerization interface [polypeptide binding]; other site 644801012003 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 644801012004 Walker A motif; other site 644801012005 ATP binding site [chemical binding]; other site 644801012006 Walker B motif; other site 644801012007 arginine finger; other site 644801012008 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801012009 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 644801012010 dimerization interface [polypeptide binding]; other site 644801012011 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 644801012012 phosphorylation site [posttranslational modification] 644801012013 dimer interface [polypeptide binding]; other site 644801012014 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 644801012015 ATP binding site [chemical binding]; other site 644801012016 Mg2+ binding site [ion binding]; other site 644801012017 G-X-G motif; other site 644801012018 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 644801012019 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644801012020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801012021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801012022 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 644801012023 substrate binding pocket [chemical binding]; other site 644801012024 dimerization interface [polypeptide binding]; other site 644801012025 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 644801012026 hydrophobic ligand binding site; other site 644801012027 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 644801012028 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 644801012029 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 644801012030 active site 644801012031 phosphorylation site [posttranslational modification] 644801012032 intermolecular recognition site; other site 644801012033 dimerization interface [polypeptide binding]; other site 644801012034 sensory histidine kinase DcuS; Provisional; Region: PRK11086 644801012035 PAS domain; Region: PAS; smart00091 644801012036 putative active site [active] 644801012037 heme pocket [chemical binding]; other site 644801012038 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 644801012039 ATP binding site [chemical binding]; other site 644801012040 Mg2+ binding site [ion binding]; other site 644801012041 G-X-G motif; other site 644801012042 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 644801012043 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644801012044 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644801012045 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801012046 dimer interface [polypeptide binding]; other site 644801012047 putative CheW interface [polypeptide binding]; other site 644801012048 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 644801012049 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 644801012050 G1 box; other site 644801012051 putative GEF interaction site [polypeptide binding]; other site 644801012052 GTP/Mg2+ binding site [chemical binding]; other site 644801012053 Switch I region; other site 644801012054 G2 box; other site 644801012055 G3 box; other site 644801012056 Switch II region; other site 644801012057 G4 box; other site 644801012058 G5 box; other site 644801012059 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 644801012060 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 644801012061 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 644801012062 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 644801012063 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 644801012064 Ligand Binding Site [chemical binding]; other site 644801012065 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 644801012066 glutamine synthetase; Provisional; Region: glnA; PRK09469 644801012067 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 644801012068 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 644801012069 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 644801012070 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 644801012071 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644801012072 PAS domain; Region: PAS; smart00091 644801012073 putative active site [active] 644801012074 heme pocket [chemical binding]; other site 644801012075 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 644801012076 dimer interface [polypeptide binding]; other site 644801012077 phosphorylation site [posttranslational modification] 644801012078 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 644801012079 ATP binding site [chemical binding]; other site 644801012080 Mg2+ binding site [ion binding]; other site 644801012081 G-X-G motif; other site 644801012082 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 644801012083 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 644801012084 active site 644801012085 phosphorylation site [posttranslational modification] 644801012086 intermolecular recognition site; other site 644801012087 dimerization interface [polypeptide binding]; other site 644801012088 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 644801012089 Walker A motif; other site 644801012090 ATP binding site [chemical binding]; other site 644801012091 Walker B motif; other site 644801012092 arginine finger; other site 644801012093 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801012094 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 644801012095 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 644801012096 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 644801012097 putative molybdopterin cofactor binding site [chemical binding]; other site 644801012098 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 644801012099 putative molybdopterin cofactor binding site; other site 644801012100 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 644801012101 active site 644801012102 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 644801012103 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 644801012104 Walker A motif; other site 644801012105 ATP binding site [chemical binding]; other site 644801012106 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 644801012107 Walker B motif; other site 644801012108 arginine finger; other site 644801012109 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 644801012110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 644801012111 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 644801012112 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 644801012113 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 644801012114 S-adenosylmethionine binding site [chemical binding]; other site 644801012115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 644801012116 SCP-2 sterol transfer family; Region: SCP2; pfam02036 644801012117 ABC1 family; Region: ABC1; cl17513 644801012118 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 644801012119 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 644801012120 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 644801012121 metal binding site [ion binding]; metal-binding site 644801012122 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 644801012123 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 644801012124 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 644801012125 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 644801012126 RNA methyltransferase, RsmE family; Region: TIGR00046 644801012127 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 644801012128 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 644801012129 putative active site [active] 644801012130 dimerization interface [polypeptide binding]; other site 644801012131 putative tRNAtyr binding site [nucleotide binding]; other site 644801012132 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 644801012133 TAP-like protein; Region: Abhydrolase_4; pfam08386 644801012134 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 644801012135 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 644801012136 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 644801012137 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 644801012138 fructose-1,6-bisphosphatase family protein; Region: PLN02628 644801012139 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 644801012140 AMP binding site [chemical binding]; other site 644801012141 metal binding site [ion binding]; metal-binding site 644801012142 active site 644801012143 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 644801012144 homodimer interface [polypeptide binding]; other site 644801012145 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 644801012146 active site pocket [active] 644801012147 Flagellin N-methylase; Region: FliB; pfam03692 644801012148 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 644801012149 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 644801012150 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 644801012151 active site 644801012152 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 644801012153 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 644801012154 dimer interface [polypeptide binding]; other site 644801012155 ADP-ribose binding site [chemical binding]; other site 644801012156 active site 644801012157 nudix motif; other site 644801012158 metal binding site [ion binding]; metal-binding site 644801012159 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 644801012160 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 644801012161 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 644801012162 motif II; other site 644801012163 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 644801012164 heme pocket [chemical binding]; other site 644801012165 putative active site [active] 644801012166 PAS fold; Region: PAS_4; pfam08448 644801012167 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 644801012168 putative active site [active] 644801012169 heme pocket [chemical binding]; other site 644801012170 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 644801012171 dimer interface [polypeptide binding]; other site 644801012172 phosphorylation site [posttranslational modification] 644801012173 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 644801012174 ATP binding site [chemical binding]; other site 644801012175 Mg2+ binding site [ion binding]; other site 644801012176 G-X-G motif; other site 644801012177 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801012178 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 644801012179 active site 644801012180 phosphorylation site [posttranslational modification] 644801012181 intermolecular recognition site; other site 644801012182 dimerization interface [polypeptide binding]; other site 644801012183 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 644801012184 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 644801012185 active site 644801012186 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 644801012187 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 644801012188 putative active site [active] 644801012189 metal binding site [ion binding]; metal-binding site 644801012190 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644801012191 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 644801012192 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801012193 active site 644801012194 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644801012195 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644801012196 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644801012197 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644801012198 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644801012199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801012200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801012201 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 644801012202 putative substrate binding pocket [chemical binding]; other site 644801012203 dimerization interface [polypeptide binding]; other site 644801012204 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 644801012205 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 644801012206 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 644801012207 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 644801012208 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; cl00075 644801012209 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 644801012210 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 644801012211 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 644801012212 dimer interface [polypeptide binding]; other site 644801012213 phosphorylation site [posttranslational modification] 644801012214 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 644801012215 ATP binding site [chemical binding]; other site 644801012216 Mg2+ binding site [ion binding]; other site 644801012217 G-X-G motif; other site 644801012218 Response regulator receiver domain; Region: Response_reg; pfam00072 644801012219 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 644801012220 active site 644801012221 phosphorylation site [posttranslational modification] 644801012222 intermolecular recognition site; other site 644801012223 dimerization interface [polypeptide binding]; other site 644801012224 PAS fold; Region: PAS_4; pfam08448 644801012225 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 644801012226 ATP binding site [chemical binding]; other site 644801012227 Mg2+ binding site [ion binding]; other site 644801012228 G-X-G motif; other site 644801012229 Response regulator receiver domain; Region: Response_reg; pfam00072 644801012230 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 644801012231 active site 644801012232 phosphorylation site [posttranslational modification] 644801012233 intermolecular recognition site; other site 644801012234 dimerization interface [polypeptide binding]; other site 644801012235 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 644801012236 DNA-binding site [nucleotide binding]; DNA binding site 644801012237 RNA-binding motif; other site 644801012238 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 644801012239 active site 644801012240 catalytic residues [active] 644801012241 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 644801012242 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; cl00250 644801012243 30S subunit binding site; other site 644801012244 TLC ATP/ADP transporter; Region: TLC; cl03940 644801012245 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 644801012246 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 644801012247 active site 644801012248 catalytic tetrad [active] 644801012249 FIST N domain; Region: FIST; smart00897 644801012250 FIST C domain; Region: FIST_C; pfam10442 644801012251 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644801012252 dimer interface [polypeptide binding]; other site 644801012253 putative CheW interface [polypeptide binding]; other site 644801012254 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 644801012255 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 644801012256 ATP binding site [chemical binding]; other site 644801012257 putative Mg++ binding site [ion binding]; other site 644801012258 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 644801012259 nucleotide binding region [chemical binding]; other site 644801012260 ATP-binding site [chemical binding]; other site 644801012261 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 644801012262 Nitroreductase-like family 1. 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_1; cd02137 644801012263 dimer interface [polypeptide binding]; other site 644801012264 FMN binding site [chemical binding]; other site 644801012265 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 644801012266 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 644801012267 active site 644801012268 substrate-binding site [chemical binding]; other site 644801012269 metal-binding site [ion binding] 644801012270 ATP binding site [chemical binding]; other site 644801012271 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 644801012272 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 644801012273 dimerization interface [polypeptide binding]; other site 644801012274 domain crossover interface; other site 644801012275 redox-dependent activation switch; other site 644801012276 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 644801012277 active site 644801012278 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 644801012279 RNA binding surface [nucleotide binding]; other site 644801012280 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 644801012281 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 644801012282 RimK-like ATP-grasp domain; Region: RimK; pfam08443 644801012283 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 644801012284 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 644801012285 dimerization interface [polypeptide binding]; other site 644801012286 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 644801012287 ATP binding site [chemical binding]; other site 644801012288 Mg2+ binding site [ion binding]; other site 644801012289 G-X-G motif; other site 644801012290 osmolarity response regulator; Provisional; Region: ompR; PRK09468 644801012291 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 644801012292 active site 644801012293 phosphorylation site [posttranslational modification] 644801012294 intermolecular recognition site; other site 644801012295 dimerization interface [polypeptide binding]; other site 644801012296 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 644801012297 DNA binding site [nucleotide binding] 644801012298 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 644801012299 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 644801012300 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 644801012301 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 644801012302 RNA binding site [nucleotide binding]; other site 644801012303 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 644801012304 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 644801012305 CoenzymeA binding site [chemical binding]; other site 644801012306 subunit interaction site [polypeptide binding]; other site 644801012307 PHB binding site; other site 644801012308 glutamate--cysteine ligase; Provisional; Region: PRK02107 644801012309 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 644801012310 N-acetylglutamate synthase; Validated; Region: PRK05279 644801012311 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 644801012312 putative feedback inhibition sensing region; other site 644801012313 putative nucleotide binding site [chemical binding]; other site 644801012314 putative substrate binding site [chemical binding]; other site 644801012315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801012316 Coenzyme A binding pocket [chemical binding]; other site 644801012317 acetylornithine deacetylase; Provisional; Region: PRK05111 644801012318 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 644801012319 metal binding site [ion binding]; metal-binding site 644801012320 putative dimer interface [polypeptide binding]; other site 644801012321 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 644801012322 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 644801012323 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 644801012324 Uncharacterized conserved protein [Function unknown]; Region: COG3025 644801012325 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 644801012326 putative active site [active] 644801012327 putative metal binding residues [ion binding]; other site 644801012328 signature motif; other site 644801012329 putative triphosphate binding site [ion binding]; other site 644801012330 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 644801012331 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 644801012332 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 644801012333 Walker A motif; other site 644801012334 ATP binding site [chemical binding]; other site 644801012335 Walker B motif; other site 644801012336 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 644801012337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 644801012338 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 644801012339 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 644801012340 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 644801012341 PAS domain S-box; Region: sensory_box; TIGR00229 644801012342 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 644801012343 putative active site [active] 644801012344 heme pocket [chemical binding]; other site 644801012345 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 644801012346 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644801012347 putative active site [active] 644801012348 heme pocket [chemical binding]; other site 644801012349 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 644801012350 putative active site [active] 644801012351 heme pocket [chemical binding]; other site 644801012352 PAS fold; Region: PAS_3; pfam08447 644801012353 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644801012354 GAF domain; Region: GAF; pfam01590 644801012355 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 644801012356 PAS domain; Region: PAS_9; pfam13426 644801012357 putative active site [active] 644801012358 heme pocket [chemical binding]; other site 644801012359 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 644801012360 dimer interface [polypeptide binding]; other site 644801012361 phosphorylation site [posttranslational modification] 644801012362 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 644801012363 ATP binding site [chemical binding]; other site 644801012364 Mg2+ binding site [ion binding]; other site 644801012365 G-X-G motif; other site 644801012366 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801012367 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 644801012368 active site 644801012369 phosphorylation site [posttranslational modification] 644801012370 intermolecular recognition site; other site 644801012371 dimerization interface [polypeptide binding]; other site 644801012372 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 644801012373 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 644801012374 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 644801012375 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 644801012376 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 644801012377 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 644801012378 DctM-like transporters; Region: DctM; pfam06808 644801012379 Methyltransferase domain; Region: Methyltransf_32; pfam13679 644801012380 integrase; Provisional; Region: PRK09692 644801012381 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 644801012382 active site 644801012383 Int/Topo IB signature motif; other site 644801012384 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 644801012385 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 644801012386 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 644801012387 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 644801012388 Chromate transporter; Region: Chromate_transp; pfam02417 644801012389 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 644801012390 active site residue [active] 644801012391 conjugal transfer protein TrbP; Provisional; Region: PRK13882 644801012392 TraX protein; Region: TraX; pfam05857 644801012393 Predicted membrane protein [Function unknown]; Region: COG1238 644801012394 High-affinity nickel-transport protein; Region: NicO; cl00964 644801012395 High-affinity nickel-transport protein; Region: NicO; cl00964 644801012396 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 644801012397 putative homodimer interface [polypeptide binding]; other site 644801012398 putative homotetramer interface [polypeptide binding]; other site 644801012399 putative metal binding site [ion binding]; other site 644801012400 putative homodimer-homodimer interface [polypeptide binding]; other site 644801012401 putative allosteric switch controlling residues; other site 644801012402 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 644801012403 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 644801012404 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 644801012405 motif II; other site 644801012406 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 644801012407 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 644801012408 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 644801012409 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 644801012410 catalytic residues [active] 644801012411 catalytic nucleophile [active] 644801012412 Presynaptic Site I dimer interface [polypeptide binding]; other site 644801012413 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644801012414 Synaptic Flat tetramer interface [polypeptide binding]; other site 644801012415 Synaptic Site I dimer interface [polypeptide binding]; other site 644801012416 DNA binding site [nucleotide binding] 644801012417 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 644801012418 DNA-binding interface [nucleotide binding]; DNA binding site 644801012419 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 644801012420 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 644801012421 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 644801012422 ATP binding site [chemical binding]; other site 644801012423 putative Mg++ binding site [ion binding]; other site 644801012424 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 644801012425 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 644801012426 Divergent AAA domain; Region: AAA_4; pfam04326 644801012427 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 644801012428 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 644801012429 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644801012430 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 644801012431 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644801012432 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644801012433 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644801012434 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 644801012435 Methyltransferase domain; Region: Methyltransf_26; pfam13659 644801012436 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 644801012437 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 644801012438 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 644801012439 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 644801012440 Walker A/P-loop; other site 644801012441 ATP binding site [chemical binding]; other site 644801012442 Q-loop/lid; other site 644801012443 ABC transporter signature motif; other site 644801012444 Walker B; other site 644801012445 D-loop; other site 644801012446 H-loop/switch region; other site 644801012447 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644801012448 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801012449 dimer interface [polypeptide binding]; other site 644801012450 conserved gate region; other site 644801012451 putative PBP binding loops; other site 644801012452 ABC-ATPase subunit interface; other site 644801012453 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 644801012454 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 644801012455 active site 644801012456 dimer interface [polypeptide binding]; other site 644801012457 non-prolyl cis peptide bond; other site 644801012458 insertion regions; other site 644801012459 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 644801012460 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 644801012461 substrate binding pocket [chemical binding]; other site 644801012462 membrane-bound complex binding site; other site 644801012463 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 644801012464 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644801012465 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 644801012466 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 644801012467 dimer interface [polypeptide binding]; other site 644801012468 decamer (pentamer of dimers) interface [polypeptide binding]; other site 644801012469 catalytic triad [active] 644801012470 Serine hydrolase; Region: Ser_hydrolase; pfam06821 644801012471 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644801012472 Uncharacterized small protein [Function unknown]; Region: COG5583 644801012473 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 644801012474 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 644801012475 substrate binding pocket [chemical binding]; other site 644801012476 membrane-bound complex binding site; other site 644801012477 hinge residues; other site 644801012478 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 644801012479 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801012480 dimer interface [polypeptide binding]; other site 644801012481 conserved gate region; other site 644801012482 putative PBP binding loops; other site 644801012483 ABC-ATPase subunit interface; other site 644801012484 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 644801012485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801012486 dimer interface [polypeptide binding]; other site 644801012487 conserved gate region; other site 644801012488 putative PBP binding loops; other site 644801012489 ABC-ATPase subunit interface; other site 644801012490 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 644801012491 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 644801012492 Walker A/P-loop; other site 644801012493 ATP binding site [chemical binding]; other site 644801012494 Q-loop/lid; other site 644801012495 ABC transporter signature motif; other site 644801012496 Walker B; other site 644801012497 D-loop; other site 644801012498 H-loop/switch region; other site 644801012499 TOBE-like domain; Region: TOBE_3; pfam12857 644801012500 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 644801012501 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 644801012502 putative ligand binding site [chemical binding]; other site 644801012503 putative NAD binding site [chemical binding]; other site 644801012504 catalytic site [active] 644801012505 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 644801012506 active site 644801012507 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 644801012508 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 644801012509 Predicted membrane protein [Function unknown]; Region: COG2261 644801012510 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 644801012511 ATP-grasp domain; Region: ATP-grasp; pfam02222 644801012512 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 644801012513 Cache domain; Region: Cache_1; pfam02743 644801012514 PAS domain S-box; Region: sensory_box; TIGR00229 644801012515 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 644801012516 putative active site [active] 644801012517 heme pocket [chemical binding]; other site 644801012518 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644801012519 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 644801012520 dimer interface [polypeptide binding]; other site 644801012521 phosphorylation site [posttranslational modification] 644801012522 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 644801012523 ATP binding site [chemical binding]; other site 644801012524 Mg2+ binding site [ion binding]; other site 644801012525 G-X-G motif; other site 644801012526 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 644801012527 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 644801012528 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 644801012529 dimer interface [polypeptide binding]; other site 644801012530 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 644801012531 active site 644801012532 Fe binding site [ion binding]; other site 644801012533 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644801012534 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644801012535 acyl-activating enzyme (AAE) consensus motif; other site 644801012536 AMP binding site [chemical binding]; other site 644801012537 active site 644801012538 CoA binding site [chemical binding]; other site 644801012539 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 644801012540 cell density-dependent motility repressor; Provisional; Region: PRK10082 644801012541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801012542 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 644801012543 dimerization interface [polypeptide binding]; other site 644801012544 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 644801012545 Aspartase; Region: Aspartase; cd01357 644801012546 active sites [active] 644801012547 tetramer interface [polypeptide binding]; other site 644801012548 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 644801012549 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 644801012550 Helix-turn-helix domain; Region: HTH_19; pfam12844 644801012551 non-specific DNA binding site [nucleotide binding]; other site 644801012552 salt bridge; other site 644801012553 sequence-specific DNA binding site [nucleotide binding]; other site 644801012554 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 644801012555 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 644801012556 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 644801012557 active site 644801012558 homodimer interface [polypeptide binding]; other site 644801012559 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 644801012560 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 644801012561 substrate binding pocket [chemical binding]; other site 644801012562 membrane-bound complex binding site; other site 644801012563 hinge residues; other site 644801012564 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 644801012565 active site clefts [active] 644801012566 zinc binding site [ion binding]; other site 644801012567 dimer interface [polypeptide binding]; other site 644801012568 glutaminase; Provisional; Region: PRK00971 644801012569 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 644801012570 Domain of unknown function (DUF897); Region: DUF897; cl01312 644801012571 pyruvate carboxylase subunit B; Validated; Region: PRK09282 644801012572 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 644801012573 active site 644801012574 catalytic residues [active] 644801012575 metal binding site [ion binding]; metal-binding site 644801012576 homodimer binding site [polypeptide binding]; other site 644801012577 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 644801012578 carboxyltransferase (CT) interaction site; other site 644801012579 biotinylation site [posttranslational modification]; other site 644801012580 pyruvate carboxylase subunit A; Validated; Region: PRK07178 644801012581 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644801012582 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 644801012583 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 644801012584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644801012585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801012586 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 644801012587 putative dimerization interface [polypeptide binding]; other site 644801012588 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 644801012589 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 644801012590 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 644801012591 putative active site [active] 644801012592 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 644801012593 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 644801012594 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 644801012595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644801012596 Coenzyme A binding pocket [chemical binding]; other site 644801012597 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 644801012598 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 644801012599 inhibitor-cofactor binding pocket; inhibition site 644801012600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801012601 catalytic residue [active] 644801012602 Ectoine synthase; Region: Ectoine_synth; pfam06339 644801012603 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 644801012604 aspartate kinase; Validated; Region: PRK09181 644801012605 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 644801012606 nucleotide binding site [chemical binding]; other site 644801012607 substrate binding site [chemical binding]; other site 644801012608 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 644801012609 allosteric regulatory residue; other site 644801012610 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644801012611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 644801012612 putative protease; Provisional; Region: PRK15452 644801012613 Peptidase family U32; Region: Peptidase_U32; pfam01136 644801012614 PAS fold; Region: PAS_3; pfam08447 644801012615 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 644801012616 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 644801012617 PAS domain; Region: PAS_9; pfam13426 644801012618 putative active site [active] 644801012619 heme pocket [chemical binding]; other site 644801012620 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801012621 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801012622 metal binding site [ion binding]; metal-binding site 644801012623 active site 644801012624 I-site; other site 644801012625 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 644801012626 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 644801012627 Part of AAA domain; Region: AAA_19; pfam13245 644801012628 Family description; Region: UvrD_C_2; pfam13538 644801012629 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801012630 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 644801012631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 644801012632 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 644801012633 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644801012634 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 644801012635 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 644801012636 Cupin; Region: Cupin_6; pfam12852 644801012637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801012638 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644801012639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801012640 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 644801012641 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 644801012642 [4Fe-4S] binding site [ion binding]; other site 644801012643 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801012644 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 644801012645 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 644801012646 molybdopterin cofactor binding site; other site 644801012647 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 644801012648 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 644801012649 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 644801012650 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 644801012651 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 644801012652 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 644801012653 selenocysteine synthase; Provisional; Region: PRK04311 644801012654 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 644801012655 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 644801012656 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644801012657 catalytic residue [active] 644801012658 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 644801012659 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 644801012660 G1 box; other site 644801012661 putative GEF interaction site [polypeptide binding]; other site 644801012662 GTP/Mg2+ binding site [chemical binding]; other site 644801012663 Switch I region; other site 644801012664 G2 box; other site 644801012665 G3 box; other site 644801012666 Switch II region; other site 644801012667 G4 box; other site 644801012668 G5 box; other site 644801012669 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 644801012670 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 644801012671 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 644801012672 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 644801012673 hypothetical protein; Provisional; Region: PRK01184 644801012674 Deoxycytidylate deaminase [Nucleotide transport and metabolism]; Region: ComEB; COG2131 644801012675 active site 644801012676 Zn binding site [ion binding]; other site 644801012677 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 644801012678 Zonular occludens toxin (Zot); Region: Zot; cl17485 644801012679 integrase; Provisional; Region: int; PHA02601 644801012680 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 644801012681 active site 644801012682 DNA binding site [nucleotide binding] 644801012683 Int/Topo IB signature motif; other site 644801012684 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 644801012685 lipoyl attachment site [posttranslational modification]; other site 644801012686 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 644801012687 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 644801012688 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 644801012689 S-adenosylmethionine binding site [chemical binding]; other site 644801012690 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 644801012691 Ligand Binding Site [chemical binding]; other site 644801012692 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 644801012693 Ligand Binding Site [chemical binding]; other site 644801012694 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 644801012695 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 644801012696 Sulfate transporter family; Region: Sulfate_transp; pfam00916 644801012697 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 644801012698 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 644801012699 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 644801012700 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644801012701 Zn2+ binding site [ion binding]; other site 644801012702 Mg2+ binding site [ion binding]; other site 644801012703 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 644801012704 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 644801012705 dimer interface [polypeptide binding]; other site 644801012706 phosphorylation site [posttranslational modification] 644801012707 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 644801012708 ATP binding site [chemical binding]; other site 644801012709 Mg2+ binding site [ion binding]; other site 644801012710 G-X-G motif; other site 644801012711 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801012712 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 644801012713 active site 644801012714 phosphorylation site [posttranslational modification] 644801012715 intermolecular recognition site; other site 644801012716 dimerization interface [polypeptide binding]; other site 644801012717 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 644801012718 Walker A motif; other site 644801012719 ATP binding site [chemical binding]; other site 644801012720 Walker B motif; other site 644801012721 arginine finger; other site 644801012722 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801012723 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 644801012724 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 644801012725 DNA binding residues [nucleotide binding] 644801012726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 644801012727 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 644801012728 SnoaL-like domain; Region: SnoaL_3; pfam13474 644801012729 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644801012730 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 644801012731 N-terminal plug; other site 644801012732 ligand-binding site [chemical binding]; other site 644801012733 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 644801012734 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 644801012735 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 644801012736 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 644801012737 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 644801012738 putative active site [active] 644801012739 heme pocket [chemical binding]; other site 644801012740 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 644801012741 putative active site [active] 644801012742 heme pocket [chemical binding]; other site 644801012743 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 644801012744 dimer interface [polypeptide binding]; other site 644801012745 phosphorylation site [posttranslational modification] 644801012746 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 644801012747 ATP binding site [chemical binding]; other site 644801012748 Mg2+ binding site [ion binding]; other site 644801012749 G-X-G motif; other site 644801012750 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801012751 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 644801012752 active site 644801012753 phosphorylation site [posttranslational modification] 644801012754 intermolecular recognition site; other site 644801012755 dimerization interface [polypeptide binding]; other site 644801012756 Response regulator receiver domain; Region: Response_reg; pfam00072 644801012757 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 644801012758 active site 644801012759 phosphorylation site [posttranslational modification] 644801012760 intermolecular recognition site; other site 644801012761 dimerization interface [polypeptide binding]; other site 644801012762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644801012763 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644801012764 active site 644801012765 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 644801012766 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 644801012767 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644801012768 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 644801012769 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644801012770 Rod binding protein; Region: Rod-binding; cl01626 644801012771 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 644801012772 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 644801012773 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644801012774 catalytic residue [active] 644801012775 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 644801012776 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 644801012777 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 644801012778 Flagellar L-ring protein; Region: FlgH; pfam02107 644801012779 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 644801012780 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644801012781 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 644801012782 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644801012783 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 644801012784 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 644801012785 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644801012786 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 644801012787 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644801012788 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 644801012789 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 644801012790 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 644801012791 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 644801012792 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644801012793 Replication regulatory protein RepB; Region: RepB-RCR_reg; cl11673 644801012794 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644801012795 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 644801012796 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 644801012797 SAF-like; Region: SAF_2; pfam13144 644801012798 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 644801012799 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 644801012800 flagellin; Provisional; Region: PRK12802 644801012801 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644801012802 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644801012803 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 644801012804 DNA binding site [nucleotide binding] 644801012805 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 644801012806 hypothetical protein; Validated; Region: PRK06778 644801012807 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644801012808 ligand binding site [chemical binding]; other site 644801012809 flagellar motor protein MotA; Provisional; Region: PRK12482 644801012810 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 644801012811 flagellar biosynthesis sigma factor; Provisional; Region: PRK12427 644801012812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801012813 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644801012814 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 644801012815 DNA binding residues [nucleotide binding] 644801012816 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 644801012817 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 644801012818 Flagellar protein FliS; Region: FliS; cl00654 644801012819 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 644801012820 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 644801012821 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 644801012822 FlgN protein; Region: FlgN; pfam05130 644801012823 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 644801012824 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 644801012825 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 644801012826 Walker A motif/ATP binding site; other site 644801012827 Walker B motif; other site 644801012828 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 644801012829 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 644801012830 Flagellar assembly protein FliH; Region: FliH; pfam02108 644801012831 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 644801012832 MgtE intracellular N domain; Region: MgtE_N; smart00924 644801012833 FliG C-terminal domain; Region: FliG_C; pfam01706 644801012834 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 644801012835 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 644801012836 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 644801012837 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 644801012838 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 644801012839 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801012840 active site 644801012841 phosphorylation site [posttranslational modification] 644801012842 intermolecular recognition site; other site 644801012843 dimerization interface [polypeptide binding]; other site 644801012844 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 644801012845 Walker A motif; other site 644801012846 ATP binding site [chemical binding]; other site 644801012847 Walker B motif; other site 644801012848 arginine finger; other site 644801012849 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801012850 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 644801012851 flagellar motor switch protein FliN; Region: fliN; TIGR02480 644801012852 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 644801012853 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 644801012854 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 644801012855 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 644801012856 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 644801012857 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 644801012858 FHIPEP family; Region: FHIPEP; pfam00771 644801012859 PilZ domain; Region: PilZ; pfam07238 644801012860 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 644801012861 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 644801012862 S-adenosylmethionine binding site [chemical binding]; other site 644801012863 Predicted permeases [General function prediction only]; Region: COG0679 644801012864 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 644801012865 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 644801012866 NAD binding site [chemical binding]; other site 644801012867 catalytic Zn binding site [ion binding]; other site 644801012868 structural Zn binding site [ion binding]; other site 644801012869 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644801012870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644801012871 NAD(P) binding site [chemical binding]; other site 644801012872 active site 644801012873 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 644801012874 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644801012875 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 644801012876 dimerization interface [polypeptide binding]; other site 644801012877 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 644801012878 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 644801012879 generic binding surface II; other site 644801012880 ssDNA binding site; other site 644801012881 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 644801012882 ATP binding site [chemical binding]; other site 644801012883 putative Mg++ binding site [ion binding]; other site 644801012884 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 644801012885 nucleotide binding region [chemical binding]; other site 644801012886 ATP-binding site [chemical binding]; other site 644801012887 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 644801012888 putative deacylase active site [active] 644801012889 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 644801012890 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 644801012891 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 644801012892 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 644801012893 GspL periplasmic domain; Region: GspL_C; pfam12693 644801012894 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 644801012895 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 644801012896 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 644801012897 type II secretion system protein I; Region: gspI; TIGR01707 644801012898 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 644801012899 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 644801012900 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 644801012901 type II secretion system protein F; Region: GspF; TIGR02120 644801012902 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644801012903 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644801012904 type II secretion system protein E; Region: type_II_gspE; TIGR02533 644801012905 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 644801012906 Walker A motif; other site 644801012907 ATP binding site [chemical binding]; other site 644801012908 Walker B motif; other site 644801012909 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 644801012910 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 644801012911 ligand binding site [chemical binding]; other site 644801012912 homodimer interface [polypeptide binding]; other site 644801012913 NAD(P) binding site [chemical binding]; other site 644801012914 trimer interface B [polypeptide binding]; other site 644801012915 trimer interface A [polypeptide binding]; other site 644801012916 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 644801012917 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 644801012918 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 644801012919 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 644801012920 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 644801012921 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 644801012922 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 644801012923 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644801012924 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644801012925 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 644801012926 conserverd hypothetical protein; Region: TIGR02448 644801012927 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 644801012928 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 644801012929 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 644801012930 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 644801012931 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 644801012932 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 644801012933 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 644801012934 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 644801012935 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 644801012936 DNA polymerase I; Provisional; Region: PRK05755 644801012937 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 644801012938 active site 644801012939 metal binding site 1 [ion binding]; metal-binding site 644801012940 putative 5' ssDNA interaction site; other site 644801012941 metal binding site 3; metal-binding site 644801012942 metal binding site 2 [ion binding]; metal-binding site 644801012943 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 644801012944 putative DNA binding site [nucleotide binding]; other site 644801012945 putative metal binding site [ion binding]; other site 644801012946 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 644801012947 active site 644801012948 catalytic site [active] 644801012949 substrate binding site [chemical binding]; other site 644801012950 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 644801012951 active site 644801012952 DNA binding site [nucleotide binding] 644801012953 catalytic site [active] 644801012954 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 644801012955 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 644801012956 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 644801012957 putative active site [active] 644801012958 putative substrate binding site [chemical binding]; other site 644801012959 ATP binding site [chemical binding]; other site 644801012960 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 644801012961 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 644801012962 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 644801012963 EamA-like transporter family; Region: EamA; cl17759 644801012964 TSCPD domain; Region: TSCPD; pfam12637 644801012965 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 644801012966 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 644801012967 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 644801012968 active site 644801012969 dimer interface [polypeptide binding]; other site 644801012970 effector binding site; other site 644801012971 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 644801012972 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 644801012973 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 644801012974 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 644801012975 acyl-activating enzyme (AAE) consensus motif; other site 644801012976 putative AMP binding site [chemical binding]; other site 644801012977 putative active site [active] 644801012978 putative CoA binding site [chemical binding]; other site 644801012979 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 644801012980 Transcriptional regulator [Transcription]; Region: IclR; COG1414 644801012981 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801012982 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801012983 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 644801012984 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644801012985 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 644801012986 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644801012987 putative substrate translocation pore; other site 644801012988 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 644801012989 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 644801012990 active site 644801012991 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 644801012992 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 644801012993 FAD binding site [chemical binding]; other site 644801012994 substrate binding site [chemical binding]; other site 644801012995 catalytic base [active] 644801012996 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 644801012997 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 644801012998 substrate binding site [chemical binding]; other site 644801012999 oxyanion hole (OAH) forming residues; other site 644801013000 trimer interface [polypeptide binding]; other site 644801013001 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644801013002 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644801013003 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644801013004 Response regulator receiver domain; Region: Response_reg; pfam00072 644801013005 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 644801013006 active site 644801013007 phosphorylation site [posttranslational modification] 644801013008 intermolecular recognition site; other site 644801013009 dimerization interface [polypeptide binding]; other site 644801013010 HDOD domain; Region: HDOD; pfam08668 644801013011 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 644801013012 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 644801013013 tetramerization interface [polypeptide binding]; other site 644801013014 NAD(P) binding site [chemical binding]; other site 644801013015 catalytic residues [active] 644801013016 Cytochrome C' Region: Cytochrom_C_2; pfam01322 644801013017 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 644801013018 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 644801013019 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 644801013020 phosphopeptide binding site; other site 644801013021 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 644801013022 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 644801013023 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 644801013024 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 644801013025 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 644801013026 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 644801013027 G1 box; other site 644801013028 GTP/Mg2+ binding site [chemical binding]; other site 644801013029 G2 box; other site 644801013030 Switch I region; other site 644801013031 G3 box; other site 644801013032 Switch II region; other site 644801013033 G4 box; other site 644801013034 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 644801013035 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 644801013036 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 644801013037 active site 644801013038 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 644801013039 Catalytic domain of Protein Kinases; Region: PKc; cd00180 644801013040 active site 644801013041 ATP binding site [chemical binding]; other site 644801013042 substrate binding site [chemical binding]; other site 644801013043 activation loop (A-loop); other site 644801013044 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 644801013045 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 644801013046 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 644801013047 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 644801013048 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 644801013049 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 644801013050 putative heme binding pocket [chemical binding]; other site 644801013051 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 644801013052 Permease; Region: Permease; pfam02405 644801013053 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 644801013054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801013055 Walker A/P-loop; other site 644801013056 ATP binding site [chemical binding]; other site 644801013057 Q-loop/lid; other site 644801013058 ABC transporter signature motif; other site 644801013059 Walker B; other site 644801013060 D-loop; other site 644801013061 H-loop/switch region; other site 644801013062 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 644801013063 mce related protein; Region: MCE; pfam02470 644801013064 Protein of unknown function (DUF330); Region: DUF330; cl01135 644801013065 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644801013066 HlyD family secretion protein; Region: HlyD_3; pfam13437 644801013067 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 644801013068 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 644801013069 Walker A/P-loop; other site 644801013070 ATP binding site [chemical binding]; other site 644801013071 Q-loop/lid; other site 644801013072 ABC transporter signature motif; other site 644801013073 Walker B; other site 644801013074 D-loop; other site 644801013075 H-loop/switch region; other site 644801013076 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 644801013077 Walker A/P-loop; other site 644801013078 ATP binding site [chemical binding]; other site 644801013079 Q-loop/lid; other site 644801013080 ABC transporter signature motif; other site 644801013081 Walker B; other site 644801013082 D-loop; other site 644801013083 H-loop/switch region; other site 644801013084 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 644801013085 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 644801013086 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 644801013087 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 644801013088 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 644801013089 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 644801013090 NAD binding site [chemical binding]; other site 644801013091 substrate binding site [chemical binding]; other site 644801013092 homodimer interface [polypeptide binding]; other site 644801013093 active site 644801013094 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 644801013095 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 644801013096 substrate binding site; other site 644801013097 tetramer interface; other site 644801013098 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 644801013099 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 644801013100 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 644801013101 NADP binding site [chemical binding]; other site 644801013102 active site 644801013103 putative substrate binding site [chemical binding]; other site 644801013104 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 644801013105 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 644801013106 dimer interface [polypeptide binding]; other site 644801013107 phosphorylation site [posttranslational modification] 644801013108 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 644801013109 ATP binding site [chemical binding]; other site 644801013110 G-X-G motif; other site 644801013111 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644801013112 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 644801013113 active site 644801013114 phosphorylation site [posttranslational modification] 644801013115 intermolecular recognition site; other site 644801013116 dimerization interface [polypeptide binding]; other site 644801013117 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 644801013118 Walker A motif; other site 644801013119 ATP binding site [chemical binding]; other site 644801013120 Walker B motif; other site 644801013121 arginine finger; other site 644801013122 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644801013123 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 644801013124 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 644801013125 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 644801013126 DctM-like transporters; Region: DctM; pfam06808 644801013127 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 644801013128 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 644801013129 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 644801013130 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 644801013131 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644801013132 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644801013133 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 644801013134 N-terminal plug; other site 644801013135 ligand-binding site [chemical binding]; other site 644801013136 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644801013137 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 644801013138 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 644801013139 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801013140 Walker A/P-loop; other site 644801013141 ATP binding site [chemical binding]; other site 644801013142 Q-loop/lid; other site 644801013143 ABC transporter signature motif; other site 644801013144 Walker B; other site 644801013145 D-loop; other site 644801013146 H-loop/switch region; other site 644801013147 NnrS protein; Region: NnrS; pfam05940 644801013148 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 644801013149 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801013150 dimer interface [polypeptide binding]; other site 644801013151 conserved gate region; other site 644801013152 putative PBP binding loops; other site 644801013153 ABC-ATPase subunit interface; other site 644801013154 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801013155 dimer interface [polypeptide binding]; other site 644801013156 conserved gate region; other site 644801013157 putative PBP binding loops; other site 644801013158 ABC-ATPase subunit interface; other site 644801013159 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 644801013160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801013161 Walker A/P-loop; other site 644801013162 ATP binding site [chemical binding]; other site 644801013163 Q-loop/lid; other site 644801013164 ABC transporter signature motif; other site 644801013165 Walker B; other site 644801013166 D-loop; other site 644801013167 H-loop/switch region; other site 644801013168 TOBE domain; Region: TOBE_2; pfam08402 644801013169 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 644801013170 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 644801013171 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 644801013172 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 644801013173 putative aminotransferase; Validated; Region: PRK07480 644801013174 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 644801013175 inhibitor-cofactor binding pocket; inhibition site 644801013176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801013177 catalytic residue [active] 644801013178 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 644801013179 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 644801013180 Peptidase C26; Region: Peptidase_C26; pfam07722 644801013181 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 644801013182 catalytic triad [active] 644801013183 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 644801013184 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 644801013185 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 644801013186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644801013187 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644801013188 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 644801013189 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 644801013190 putative active site; other site 644801013191 catalytic triad [active] 644801013192 putative dimer interface [polypeptide binding]; other site 644801013193 agmatine deiminase; Provisional; Region: PRK13551 644801013194 agmatine deiminase; Region: agmatine_aguA; TIGR03380 644801013195 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 644801013196 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801013197 active site 644801013198 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 644801013199 PAS fold; Region: PAS_3; pfam08447 644801013200 putative active site [active] 644801013201 heme pocket [chemical binding]; other site 644801013202 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801013203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801013204 metal binding site [ion binding]; metal-binding site 644801013205 active site 644801013206 I-site; other site 644801013207 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 644801013208 Fatty acid desaturase; Region: FA_desaturase; pfam00487 644801013209 Di-iron ligands [ion binding]; other site 644801013210 Transposase; Region: DDE_Tnp_ISL3; pfam01610 644801013211 PAS fold; Region: PAS_3; pfam08447 644801013212 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 644801013213 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644801013214 putative active site [active] 644801013215 heme pocket [chemical binding]; other site 644801013216 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644801013217 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 644801013218 putative active site [active] 644801013219 heme pocket [chemical binding]; other site 644801013220 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 644801013221 ATP binding site [chemical binding]; other site 644801013222 Mg2+ binding site [ion binding]; other site 644801013223 G-X-G motif; other site 644801013224 Response regulator receiver domain; Region: Response_reg; pfam00072 644801013225 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 644801013226 active site 644801013227 phosphorylation site [posttranslational modification] 644801013228 intermolecular recognition site; other site 644801013229 dimerization interface [polypeptide binding]; other site 644801013230 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644801013231 GAF domain; Region: GAF; pfam01590 644801013232 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 644801013233 PAS domain; Region: PAS_9; pfam13426 644801013234 putative active site [active] 644801013235 heme pocket [chemical binding]; other site 644801013236 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 644801013237 PAS fold; Region: PAS_3; pfam08447 644801013238 putative active site [active] 644801013239 heme pocket [chemical binding]; other site 644801013240 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644801013241 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 644801013242 putative active site [active] 644801013243 heme pocket [chemical binding]; other site 644801013244 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 644801013245 dimer interface [polypeptide binding]; other site 644801013246 phosphorylation site [posttranslational modification] 644801013247 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 644801013248 ATP binding site [chemical binding]; other site 644801013249 Mg2+ binding site [ion binding]; other site 644801013250 G-X-G motif; other site 644801013251 Response regulator receiver domain; Region: Response_reg; pfam00072 644801013252 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 644801013253 active site 644801013254 phosphorylation site [posttranslational modification] 644801013255 intermolecular recognition site; other site 644801013256 dimerization interface [polypeptide binding]; other site 644801013257 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 644801013258 putative binding surface; other site 644801013259 active site 644801013260 Response regulator receiver domain; Region: Response_reg; pfam00072 644801013261 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 644801013262 active site 644801013263 phosphorylation site [posttranslational modification] 644801013264 intermolecular recognition site; other site 644801013265 dimerization interface [polypeptide binding]; other site 644801013266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644801013267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644801013268 metal binding site [ion binding]; metal-binding site 644801013269 active site 644801013270 I-site; other site 644801013271 CHASE3 domain; Region: CHASE3; pfam05227 644801013272 PAS domain S-box; Region: sensory_box; TIGR00229 644801013273 PAS domain; Region: PAS; smart00091 644801013274 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 644801013275 dimer interface [polypeptide binding]; other site 644801013276 phosphorylation site [posttranslational modification] 644801013277 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 644801013278 ATP binding site [chemical binding]; other site 644801013279 Mg2+ binding site [ion binding]; other site 644801013280 G-X-G motif; other site 644801013281 Response regulator receiver domain; Region: Response_reg; pfam00072 644801013282 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 644801013283 active site 644801013284 phosphorylation site [posttranslational modification] 644801013285 intermolecular recognition site; other site 644801013286 dimerization interface [polypeptide binding]; other site 644801013287 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801013288 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 644801013289 active site 644801013290 phosphorylation site [posttranslational modification] 644801013291 intermolecular recognition site; other site 644801013292 dimerization interface [polypeptide binding]; other site 644801013293 Response regulator receiver domain; Region: Response_reg; pfam00072 644801013294 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 644801013295 active site 644801013296 phosphorylation site [posttranslational modification] 644801013297 intermolecular recognition site; other site 644801013298 dimerization interface [polypeptide binding]; other site 644801013299 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 644801013300 TPR motif; other site 644801013301 TPR repeat; Region: TPR_11; pfam13414 644801013302 binding surface 644801013303 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644801013304 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 644801013305 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 644801013306 DXD motif; other site 644801013307 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 644801013308 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 644801013309 NAD(P) binding site [chemical binding]; other site 644801013310 catalytic residues [active] 644801013311 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 644801013312 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 644801013313 inhibitor-cofactor binding pocket; inhibition site 644801013314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644801013315 catalytic residue [active] 644801013316 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 644801013317 intersubunit interface [polypeptide binding]; other site 644801013318 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 644801013319 metal binding site [ion binding]; metal-binding site 644801013320 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 644801013321 metal binding site 2 [ion binding]; metal-binding site 644801013322 putative DNA binding helix; other site 644801013323 metal binding site 1 [ion binding]; metal-binding site 644801013324 dimer interface [polypeptide binding]; other site 644801013325 structural Zn2+ binding site [ion binding]; other site 644801013326 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 644801013327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644801013328 Walker A/P-loop; other site 644801013329 ATP binding site [chemical binding]; other site 644801013330 Q-loop/lid; other site 644801013331 ABC transporter signature motif; other site 644801013332 Walker B; other site 644801013333 D-loop; other site 644801013334 H-loop/switch region; other site 644801013335 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 644801013336 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 644801013337 ABC-ATPase subunit interface; other site 644801013338 dimer interface [polypeptide binding]; other site 644801013339 putative PBP binding regions; other site 644801013340 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 644801013341 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 644801013342 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644801013343 transmembrane helices; other site 644801013344 hydroperoxidase II; Provisional; Region: katE; PRK11249 644801013345 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 644801013346 tetramer interface [polypeptide binding]; other site 644801013347 heme binding pocket [chemical binding]; other site 644801013348 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 644801013349 domain interactions; other site 644801013350 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 644801013351 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 644801013352 Walker A/P-loop; other site 644801013353 ATP binding site [chemical binding]; other site 644801013354 Q-loop/lid; other site 644801013355 ABC transporter signature motif; other site 644801013356 Walker B; other site 644801013357 D-loop; other site 644801013358 H-loop/switch region; other site 644801013359 NIL domain; Region: NIL; pfam09383 644801013360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644801013361 dimer interface [polypeptide binding]; other site 644801013362 conserved gate region; other site 644801013363 ABC-ATPase subunit interface; other site 644801013364 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 644801013365 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 644801013366 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 644801013367 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 644801013368 putative NAD(P) binding site [chemical binding]; other site 644801013369 putative substrate binding site [chemical binding]; other site 644801013370 catalytic Zn binding site [ion binding]; other site 644801013371 structural Zn binding site [ion binding]; other site 644801013372 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_18; cd08357 644801013373 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644801013374 putative metal binding site [ion binding]; other site 644801013375 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 644801013376 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 644801013377 trimer interface [polypeptide binding]; other site 644801013378 putative metal binding site [ion binding]; other site 644801013379 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 644801013380 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 644801013381 active site 644801013382 Zn binding site [ion binding]; other site 644801013383 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 644801013384 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 644801013385 Protein of unknown function; Region: DUF3658; pfam12395 644801013386 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644801013387 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 644801013388 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 644801013389 FeS/SAM binding site; other site 644801013390 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 644801013391 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 644801013392 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 644801013393 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 644801013394 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 644801013395 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 644801013396 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 644801013397 Subunit I/III interface [polypeptide binding]; other site 644801013398 D-pathway; other site 644801013399 Subunit I/VIIc interface [polypeptide binding]; other site 644801013400 Subunit I/IV interface [polypeptide binding]; other site 644801013401 Subunit I/II interface [polypeptide binding]; other site 644801013402 Low-spin heme (heme a) binding site [chemical binding]; other site 644801013403 Subunit I/VIIa interface [polypeptide binding]; other site 644801013404 Subunit I/VIa interface [polypeptide binding]; other site 644801013405 Dimer interface; other site 644801013406 Putative water exit pathway; other site 644801013407 Binuclear center (heme a3/CuB) [ion binding]; other site 644801013408 K-pathway; other site 644801013409 Subunit I/Vb interface [polypeptide binding]; other site 644801013410 Putative proton exit pathway; other site 644801013411 Subunit I/VIb interface; other site 644801013412 Subunit I/VIc interface [polypeptide binding]; other site 644801013413 Electron transfer pathway; other site 644801013414 Subunit I/VIIIb interface [polypeptide binding]; other site 644801013415 Subunit I/VIIb interface [polypeptide binding]; other site 644801013416 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 644801013417 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 644801013418 Subunit III/VIIa interface [polypeptide binding]; other site 644801013419 Phospholipid binding site [chemical binding]; other site 644801013420 Subunit I/III interface [polypeptide binding]; other site 644801013421 Subunit III/VIb interface [polypeptide binding]; other site 644801013422 Subunit III/VIa interface; other site 644801013423 Subunit III/Vb interface [polypeptide binding]; other site 644801013424 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 644801013425 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 644801013426 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 644801013427 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 644801013428 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 644801013429 UbiA prenyltransferase family; Region: UbiA; pfam01040 644801013430 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 644801013431 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644801013432 Cu(I) binding site [ion binding]; other site 644801013433 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 644801013434 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 644801013435 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 644801013436 Secretin and TonB N terminus short domain; Region: STN; smart00965 644801013437 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 644801013438 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 644801013439 N-terminal plug; other site 644801013440 ligand-binding site [chemical binding]; other site 644801013441 fec operon regulator FecR; Reviewed; Region: PRK09774 644801013442 FecR protein; Region: FecR; pfam04773 644801013443 RNA polymerase sigma factor; Provisional; Region: PRK12528 644801013444 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644801013445 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 644801013446 DNA binding residues [nucleotide binding] 644801013447 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 644801013448 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 644801013449 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 644801013450 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 644801013451 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 644801013452 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 644801013453 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 644801013454 GAF domain; Region: GAF; pfam01590 644801013455 Phytochrome region; Region: PHY; pfam00360 644801013456 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 644801013457 dimer interface [polypeptide binding]; other site 644801013458 phosphorylation site [posttranslational modification] 644801013459 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 644801013460 ATP binding site [chemical binding]; other site 644801013461 Mg2+ binding site [ion binding]; other site 644801013462 G-X-G motif; other site 644801013463 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801013464 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 644801013465 active site 644801013466 phosphorylation site [posttranslational modification] 644801013467 intermolecular recognition site; other site 644801013468 dimerization interface [polypeptide binding]; other site 644801013469 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801013470 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 644801013471 active site 644801013472 phosphorylation site [posttranslational modification] 644801013473 intermolecular recognition site; other site 644801013474 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 644801013475 PAS fold; Region: PAS_3; pfam08447 644801013476 putative active site [active] 644801013477 heme pocket [chemical binding]; other site 644801013478 PAS domain S-box; Region: sensory_box; TIGR00229 644801013479 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 644801013480 putative active site [active] 644801013481 heme pocket [chemical binding]; other site 644801013482 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 644801013483 dimer interface [polypeptide binding]; other site 644801013484 phosphorylation site [posttranslational modification] 644801013485 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 644801013486 ATP binding site [chemical binding]; other site 644801013487 Mg2+ binding site [ion binding]; other site 644801013488 G-X-G motif; other site 644801013489 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644801013490 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 644801013491 active site 644801013492 phosphorylation site [posttranslational modification] 644801013493 intermolecular recognition site; other site 644801013494 dimerization interface [polypeptide binding]; other site 644801013495 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 644801013496 heme binding pocket [chemical binding]; other site 644801013497 heme ligand [chemical binding]; other site 644801013498 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 644801013499 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 644801013500 glutaminase active site [active] 644801013501 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 644801013502 dimer interface [polypeptide binding]; other site 644801013503 active site 644801013504 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 644801013505 dimer interface [polypeptide binding]; other site 644801013506 active site 644801013507 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 644801013508 putative DNA binding site [nucleotide binding]; other site 644801013509 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 644801013510 putative Zn2+ binding site [ion binding]; other site 644801013511 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 644801013512 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 644801013513 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 644801013514 Substrate binding site; other site 644801013515 Mg++ binding site; other site 644801013516 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 644801013517 active site 644801013518 substrate binding site [chemical binding]; other site 644801013519 CoA binding site [chemical binding]; other site 644801013520 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 644801013521 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 644801013522 gamma subunit interface [polypeptide binding]; other site 644801013523 epsilon subunit interface [polypeptide binding]; other site 644801013524 LBP interface [polypeptide binding]; other site 644801013525 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 644801013526 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 644801013527 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 644801013528 alpha subunit interaction interface [polypeptide binding]; other site 644801013529 Walker A motif; other site 644801013530 ATP binding site [chemical binding]; other site 644801013531 Walker B motif; other site 644801013532 inhibitor binding site; inhibition site 644801013533 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 644801013534 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 644801013535 core domain interface [polypeptide binding]; other site 644801013536 delta subunit interface [polypeptide binding]; other site 644801013537 epsilon subunit interface [polypeptide binding]; other site 644801013538 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 644801013539 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 644801013540 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 644801013541 beta subunit interaction interface [polypeptide binding]; other site 644801013542 Walker A motif; other site 644801013543 ATP binding site [chemical binding]; other site 644801013544 Walker B motif; other site 644801013545 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 644801013546 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 644801013547 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 644801013548 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 644801013549 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 644801013550 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 644801013551 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 644801013552 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 644801013553 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 644801013554 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 644801013555 ParB-like nuclease domain; Region: ParBc; pfam02195 644801013556 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644801013557 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 644801013558 P-loop; other site 644801013559 Magnesium ion binding site [ion binding]; other site 644801013560 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 644801013561 Magnesium ion binding site [ion binding]; other site 644801013562 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 644801013563 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 644801013564 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 644801013565 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 644801013566 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 644801013567 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 644801013568 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 644801013569 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 644801013570 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 644801013571 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 644801013572 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 644801013573 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 644801013574 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 644801013575 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 644801013576 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 644801013577 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 644801013578 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 644801013579 trmE is a tRNA modification GTPase; Region: trmE; cd04164 644801013580 G1 box; other site 644801013581 GTP/Mg2+ binding site [chemical binding]; other site 644801013582 Switch I region; other site 644801013583 G2 box; other site 644801013584 Switch II region; other site 644801013585 G3 box; other site 644801013586 G4 box; other site 644801013587 G5 box; other site 644801013588 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 644801013589 membrane protein insertase; Provisional; Region: PRK01318 644801013590 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 644801013591 Haemolytic domain; Region: Haemolytic; cl00506 644801013592 ribonuclease P; Reviewed; Region: rnpA; PRK00396 644801013593 stationary phase growth adaptation protein; Provisional; Region: PRK09717 644801013594 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 644801013595 dimerization interface [polypeptide binding]; other site 644801013596 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 644801013597 multiple promoter invertase; Provisional; Region: mpi; PRK13413 644801013598 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 644801013599 catalytic residues [active] 644801013600 catalytic nucleophile [active] 644801013601 Presynaptic Site I dimer interface [polypeptide binding]; other site 644801013602 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644801013603 Synaptic Flat tetramer interface [polypeptide binding]; other site 644801013604 Synaptic Site I dimer interface [polypeptide binding]; other site 644801013605 DNA binding site [nucleotide binding] 644801013606 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 644801013607 DNA-binding interface [nucleotide binding]; DNA binding site 644801013608 multiple promoter invertase; Provisional; Region: mpi; PRK13413 644801013609 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 644801013610 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 644801013611 ParA-like protein; Provisional; Region: PHA02518 644801013612 P-loop; other site 644801013613 Magnesium ion binding site [ion binding]; other site 644801013614 ParG; Region: ParG; pfam09274 644801013615 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 644801013616 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 644801013617 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 644801013618 catalytic residues [active] 644801013619 catalytic nucleophile [active] 644801013620 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 644801013621 Virulence-associated protein E; Region: VirE; pfam05272 644801013622 Protein of unknown function (DUF3924); Region: DUF3924; pfam13062 644801013623 Helix-turn-helix domain; Region: HTH_39; pfam14090 644801013624 Terminase small subunit; Region: Terminase_2; cl01513 644801013625 Replication protein; Region: Rep_1; cl02412