-- dump date 20140619_110258 -- class Genbank::misc_feature -- table misc_feature_note -- id note 572479000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 572479000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 572479000003 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 572479000004 Walker A motif; other site 572479000005 ATP binding site [chemical binding]; other site 572479000006 Walker B motif; other site 572479000007 arginine finger; other site 572479000008 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 572479000009 DnaA box-binding interface [nucleotide binding]; other site 572479000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 572479000011 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 572479000012 putative DNA binding surface [nucleotide binding]; other site 572479000013 dimer interface [polypeptide binding]; other site 572479000014 beta-clamp/clamp loader binding surface; other site 572479000015 beta-clamp/translesion DNA polymerase binding surface; other site 572479000016 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 572479000017 RNA binding surface [nucleotide binding]; other site 572479000018 recombination protein F; Reviewed; Region: recF; PRK00064 572479000019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479000020 Walker A/P-loop; other site 572479000021 ATP binding site [chemical binding]; other site 572479000022 Q-loop/lid; other site 572479000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479000024 Q-loop/lid; other site 572479000025 ABC transporter signature motif; other site 572479000026 Walker B; other site 572479000027 D-loop; other site 572479000028 H-loop/switch region; other site 572479000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 572479000030 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 572479000031 ATP binding site [chemical binding]; other site 572479000032 Mg2+ binding site [ion binding]; other site 572479000033 G-X-G motif; other site 572479000034 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 572479000035 anchoring element; other site 572479000036 dimer interface [polypeptide binding]; other site 572479000037 ATP binding site [chemical binding]; other site 572479000038 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 572479000039 active site 572479000040 putative metal-binding site [ion binding]; other site 572479000041 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 572479000042 DNA gyrase subunit A; Validated; Region: PRK05560 572479000043 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 572479000044 CAP-like domain; other site 572479000045 active site 572479000046 primary dimer interface [polypeptide binding]; other site 572479000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572479000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572479000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572479000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572479000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572479000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572479000053 glycerol kinase; Provisional; Region: glpK; PRK00047 572479000054 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 572479000055 N- and C-terminal domain interface [polypeptide binding]; other site 572479000056 active site 572479000057 MgATP binding site [chemical binding]; other site 572479000058 catalytic site [active] 572479000059 metal binding site [ion binding]; metal-binding site 572479000060 glycerol binding site [chemical binding]; other site 572479000061 homotetramer interface [polypeptide binding]; other site 572479000062 homodimer interface [polypeptide binding]; other site 572479000063 FBP binding site [chemical binding]; other site 572479000064 protein IIAGlc interface [polypeptide binding]; other site 572479000065 Predicted dehydrogenase [General function prediction only]; Region: COG0579 572479000066 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572479000067 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572479000068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479000069 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572479000070 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 572479000071 NAD binding site [chemical binding]; other site 572479000072 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 572479000073 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479000074 dimer interface [polypeptide binding]; other site 572479000075 putative CheW interface [polypeptide binding]; other site 572479000076 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 572479000077 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 572479000078 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 572479000079 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 572479000080 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 572479000081 active site 572479000082 active pocket/dimerization site; other site 572479000083 phosphorylation site [posttranslational modification] 572479000084 SurA N-terminal domain; Region: SurA_N_3; cl07813 572479000085 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 572479000086 alanine racemase; Reviewed; Region: alr; PRK00053 572479000087 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 572479000088 active site 572479000089 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572479000090 dimer interface [polypeptide binding]; other site 572479000091 substrate binding site [chemical binding]; other site 572479000092 catalytic residues [active] 572479000093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 572479000094 seryl-tRNA synthetase; Provisional; Region: PRK05431 572479000095 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 572479000096 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 572479000097 dimer interface [polypeptide binding]; other site 572479000098 active site 572479000099 motif 1; other site 572479000100 motif 2; other site 572479000101 motif 3; other site 572479000102 potential frameshift: common BLAST hit: gi|312142435|ref|YP_003993881.1| ribonucleoside-triphosphate reductase, adenosylcobalamin-dependent 572479000103 ATP cone domain; Region: ATP-cone; pfam03477 572479000104 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 572479000105 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 572479000106 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 572479000107 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 572479000108 substrate binding pocket [chemical binding]; other site 572479000109 hinge residues; other site 572479000110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572479000111 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 572479000112 dimer interface [polypeptide binding]; other site 572479000113 phosphorylation site [posttranslational modification] 572479000114 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 572479000115 ATP binding site [chemical binding]; other site 572479000116 Mg2+ binding site [ion binding]; other site 572479000117 G-X-G motif; other site 572479000118 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 572479000119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000120 active site 572479000121 phosphorylation site [posttranslational modification] 572479000122 intermolecular recognition site; other site 572479000123 dimerization interface [polypeptide binding]; other site 572479000124 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 572479000125 Walker A motif; other site 572479000126 ATP binding site [chemical binding]; other site 572479000127 Walker B motif; other site 572479000128 arginine finger; other site 572479000129 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 572479000130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 572479000131 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 572479000132 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 572479000133 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 572479000134 MgtC family; Region: MgtC; pfam02308 572479000135 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 572479000136 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 572479000137 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 572479000138 active site 572479000139 catalytic site [active] 572479000140 metal binding site [ion binding]; metal-binding site 572479000141 dimer interface [polypeptide binding]; other site 572479000142 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572479000143 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572479000144 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 572479000145 DctM-like transporters; Region: DctM; pfam06808 572479000146 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 572479000147 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 572479000148 MgtC family; Region: MgtC; pfam02308 572479000149 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 572479000150 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572479000151 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 572479000152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479000153 Walker A/P-loop; other site 572479000154 ATP binding site [chemical binding]; other site 572479000155 Q-loop/lid; other site 572479000156 ABC transporter signature motif; other site 572479000157 Walker B; other site 572479000158 D-loop; other site 572479000159 H-loop/switch region; other site 572479000160 ABC-2 type transporter; Region: ABC2_membrane; cl17235 572479000161 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 572479000162 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 572479000163 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 572479000164 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 572479000165 putative metal binding site [ion binding]; other site 572479000166 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 572479000167 HSP70 interaction site [polypeptide binding]; other site 572479000168 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 572479000169 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 572479000170 putative ligand binding site [chemical binding]; other site 572479000171 putative NAD binding site [chemical binding]; other site 572479000172 catalytic site [active] 572479000173 Protein of unknown function (DUF328); Region: DUF328; pfam03883 572479000174 Sensory domain found in PocR; Region: PocR; pfam10114 572479000175 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 572479000176 PAS domain S-box; Region: sensory_box; TIGR00229 572479000177 PAS domain; Region: PAS; smart00091 572479000178 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479000179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479000180 metal binding site [ion binding]; metal-binding site 572479000181 active site 572479000182 I-site; other site 572479000183 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572479000184 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479000185 Zn2+ binding site [ion binding]; other site 572479000186 Mg2+ binding site [ion binding]; other site 572479000187 Probable transposase; Region: OrfB_IS605; pfam01385 572479000188 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 572479000189 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 572479000190 Transposase IS200 like; Region: Y1_Tnp; pfam01797 572479000191 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 572479000192 Helix-turn-helix domain; Region: HTH_38; pfam13936 572479000193 Integrase core domain; Region: rve; pfam00665 572479000194 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 572479000195 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 572479000196 putative ligand binding residues [chemical binding]; other site 572479000197 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 572479000198 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 572479000199 ABC-ATPase subunit interface; other site 572479000200 dimer interface [polypeptide binding]; other site 572479000201 putative PBP binding regions; other site 572479000202 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 572479000203 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 572479000204 Walker A/P-loop; other site 572479000205 ATP binding site [chemical binding]; other site 572479000206 Q-loop/lid; other site 572479000207 ABC transporter signature motif; other site 572479000208 Walker B; other site 572479000209 D-loop; other site 572479000210 H-loop/switch region; other site 572479000211 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 572479000212 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 572479000213 non-specific DNA binding site [nucleotide binding]; other site 572479000214 salt bridge; other site 572479000215 sequence-specific DNA binding site [nucleotide binding]; other site 572479000216 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479000217 Zn2+ binding site [ion binding]; other site 572479000218 Mg2+ binding site [ion binding]; other site 572479000219 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 572479000220 dimerization interface [polypeptide binding]; other site 572479000221 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479000222 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479000223 dimer interface [polypeptide binding]; other site 572479000224 putative CheW interface [polypeptide binding]; other site 572479000225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479000226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479000227 metal binding site [ion binding]; metal-binding site 572479000228 active site 572479000229 I-site; other site 572479000230 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479000231 Zn2+ binding site [ion binding]; other site 572479000232 Mg2+ binding site [ion binding]; other site 572479000233 Response regulator receiver domain; Region: Response_reg; pfam00072 572479000234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000235 active site 572479000236 phosphorylation site [posttranslational modification] 572479000237 intermolecular recognition site; other site 572479000238 dimerization interface [polypeptide binding]; other site 572479000239 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479000240 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479000241 metal binding site [ion binding]; metal-binding site 572479000242 active site 572479000243 I-site; other site 572479000244 PAS domain S-box; Region: sensory_box; TIGR00229 572479000245 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 572479000246 putative active site [active] 572479000247 heme pocket [chemical binding]; other site 572479000248 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 572479000249 putative active site [active] 572479000250 heme pocket [chemical binding]; other site 572479000251 PAS domain S-box; Region: sensory_box; TIGR00229 572479000252 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 572479000253 dimer interface [polypeptide binding]; other site 572479000254 phosphorylation site [posttranslational modification] 572479000255 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 572479000256 ATP binding site [chemical binding]; other site 572479000257 Mg2+ binding site [ion binding]; other site 572479000258 G-X-G motif; other site 572479000259 Response regulator receiver domain; Region: Response_reg; pfam00072 572479000260 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000261 active site 572479000262 phosphorylation site [posttranslational modification] 572479000263 intermolecular recognition site; other site 572479000264 dimerization interface [polypeptide binding]; other site 572479000265 Response regulator receiver domain; Region: Response_reg; pfam00072 572479000266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000267 active site 572479000268 phosphorylation site [posttranslational modification] 572479000269 intermolecular recognition site; other site 572479000270 dimerization interface [polypeptide binding]; other site 572479000271 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 572479000272 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572479000273 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 572479000274 putative active site [active] 572479000275 heme pocket [chemical binding]; other site 572479000276 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 572479000277 Walker A motif; other site 572479000278 ATP binding site [chemical binding]; other site 572479000279 Walker B motif; other site 572479000280 arginine finger; other site 572479000281 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 572479000282 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 572479000283 homodimer interface [polypeptide binding]; other site 572479000284 substrate-cofactor binding pocket; other site 572479000285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479000286 catalytic residue [active] 572479000287 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 572479000288 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 572479000289 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 572479000290 transmembrane helices; other site 572479000291 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 572479000292 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 572479000293 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 572479000294 active site 572479000295 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 572479000296 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572479000297 DNA-binding site [nucleotide binding]; DNA binding site 572479000298 FCD domain; Region: FCD; pfam07729 572479000299 methionine gamma-lyase; Provisional; Region: PRK06234 572479000300 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 572479000301 homodimer interface [polypeptide binding]; other site 572479000302 substrate-cofactor binding pocket; other site 572479000303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479000304 catalytic residue [active] 572479000305 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 572479000306 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 572479000307 metal binding site [ion binding]; metal-binding site 572479000308 dimer interface [polypeptide binding]; other site 572479000309 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 572479000310 DctM-like transporters; Region: DctM; pfam06808 572479000311 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 572479000312 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572479000313 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 572479000314 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 572479000315 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 572479000316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 572479000317 YheO-like PAS domain; Region: PAS_6; pfam08348 572479000318 HTH domain; Region: HTH_22; pfam13309 572479000319 threonine dehydratase; Provisional; Region: PRK08198 572479000320 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 572479000321 tetramer interface [polypeptide binding]; other site 572479000322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479000323 catalytic residue [active] 572479000324 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 572479000325 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 572479000326 homotrimer interaction site [polypeptide binding]; other site 572479000327 putative active site [active] 572479000328 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 572479000329 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 572479000330 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 572479000331 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572479000332 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 572479000333 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 572479000334 dimer interface [polypeptide binding]; other site 572479000335 PYR/PP interface [polypeptide binding]; other site 572479000336 TPP binding site [chemical binding]; other site 572479000337 substrate binding site [chemical binding]; other site 572479000338 CbiD; Region: CbiD; cl00828 572479000339 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 572479000340 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 572479000341 TPP-binding site [chemical binding]; other site 572479000342 putative dimer interface [polypeptide binding]; other site 572479000343 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 572479000344 propionate/acetate kinase; Provisional; Region: PRK12379 572479000345 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 572479000346 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 572479000347 CAT RNA binding domain; Region: CAT_RBD; smart01061 572479000348 transcriptional antiterminator BglG; Provisional; Region: PRK09772 572479000349 PRD domain; Region: PRD; pfam00874 572479000350 PRD domain; Region: PRD; pfam00874 572479000351 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 572479000352 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 572479000353 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 572479000354 active site turn [active] 572479000355 phosphorylation site [posttranslational modification] 572479000356 NAD-dependent deacetylase; Provisional; Region: PRK00481 572479000357 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 572479000358 NAD+ binding site [chemical binding]; other site 572479000359 substrate binding site [chemical binding]; other site 572479000360 Zn binding site [ion binding]; other site 572479000361 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 572479000362 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 572479000363 ligand binding site; other site 572479000364 oligomer interface; other site 572479000365 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 572479000366 dimer interface [polypeptide binding]; other site 572479000367 N-terminal domain interface [polypeptide binding]; other site 572479000368 sulfate 1 binding site; other site 572479000369 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 572479000370 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 572479000371 urocanate hydratase; Provisional; Region: PRK05414 572479000372 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 572479000373 glutamate formiminotransferase; Region: FtcD; TIGR02024 572479000374 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 572479000375 Formiminotransferase domain; Region: FTCD; pfam02971 572479000376 imidazolonepropionase; Validated; Region: PRK09356 572479000377 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 572479000378 active site 572479000379 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 572479000380 AAA ATPase domain; Region: AAA_16; pfam13191 572479000381 Tetratricopeptide repeat; Region: TPR_12; pfam13424 572479000382 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 572479000383 active sites [active] 572479000384 tetramer interface [polypeptide binding]; other site 572479000385 formimidoylglutamase; Provisional; Region: PRK13775 572479000386 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 572479000387 putative active site [active] 572479000388 putative metal binding site [ion binding]; other site 572479000389 Predicted permease [General function prediction only]; Region: COG2056 572479000390 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 572479000391 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 572479000392 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 572479000393 active site 572479000394 homotetramer interface [polypeptide binding]; other site 572479000395 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 572479000396 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 572479000397 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 572479000398 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 572479000399 active site 572479000400 catalytic tetrad [active] 572479000401 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 572479000402 intersubunit interface [polypeptide binding]; other site 572479000403 active site 572479000404 catalytic residue [active] 572479000405 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479000406 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479000407 metal binding site [ion binding]; metal-binding site 572479000408 active site 572479000409 I-site; other site 572479000410 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 572479000411 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 572479000412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000413 active site 572479000414 phosphorylation site [posttranslational modification] 572479000415 intermolecular recognition site; other site 572479000416 dimerization interface [polypeptide binding]; other site 572479000417 LytTr DNA-binding domain; Region: LytTR; pfam04397 572479000418 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 572479000419 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 572479000420 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 572479000421 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 572479000422 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 572479000423 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 572479000424 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 572479000425 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 572479000426 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572479000427 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 572479000428 UDP-galactopyranose mutase; Region: GLF; pfam03275 572479000429 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 572479000430 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 572479000431 active site 572479000432 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572479000433 active site 572479000434 HIGH motif; other site 572479000435 nucleotide binding site [chemical binding]; other site 572479000436 (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 572479000437 dimer interaction site [polypeptide binding]; other site 572479000438 substrate-binding tunnel; other site 572479000439 active site 572479000440 catalytic site [active] 572479000441 substrate binding site [chemical binding]; other site 572479000442 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 572479000443 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 572479000444 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 572479000445 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 572479000446 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 572479000447 substrate binding site [chemical binding]; other site 572479000448 oxyanion hole (OAH) forming residues; other site 572479000449 trimer interface [polypeptide binding]; other site 572479000450 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 572479000451 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 572479000452 FAD binding site [chemical binding]; other site 572479000453 homotetramer interface [polypeptide binding]; other site 572479000454 substrate binding pocket [chemical binding]; other site 572479000455 catalytic base [active] 572479000456 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 572479000457 Ligand binding site [chemical binding]; other site 572479000458 Electron transfer flavoprotein domain; Region: ETF; pfam01012 572479000459 Ferredoxin [Energy production and conversion]; Region: COG1146 572479000460 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572479000461 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 572479000462 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 572479000463 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 572479000464 putative acyltransferase; Provisional; Region: PRK05790 572479000465 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 572479000466 dimer interface [polypeptide binding]; other site 572479000467 active site 572479000468 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 572479000469 Coenzyme A transferase; Region: CoA_trans; smart00882 572479000470 Coenzyme A transferase; Region: CoA_trans; cl17247 572479000471 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 572479000472 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 572479000473 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 572479000474 putative active site [active] 572479000475 heme pocket [chemical binding]; other site 572479000476 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 572479000477 putative active site [active] 572479000478 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 572479000479 Walker A motif; other site 572479000480 ATP binding site [chemical binding]; other site 572479000481 Walker B motif; other site 572479000482 arginine finger; other site 572479000483 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 572479000484 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 572479000485 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 572479000486 HAMP domain; Region: HAMP; pfam00672 572479000487 dimerization interface [polypeptide binding]; other site 572479000488 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479000489 dimer interface [polypeptide binding]; other site 572479000490 putative CheW interface [polypeptide binding]; other site 572479000491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572479000492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572479000493 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 572479000494 putative dimerization interface [polypeptide binding]; other site 572479000495 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 572479000496 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 572479000497 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572479000498 catalytic residue [active] 572479000499 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 572479000500 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 572479000501 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572479000502 substrate binding pocket [chemical binding]; other site 572479000503 membrane-bound complex binding site; other site 572479000504 hinge residues; other site 572479000505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479000506 dimer interface [polypeptide binding]; other site 572479000507 conserved gate region; other site 572479000508 putative PBP binding loops; other site 572479000509 ABC-ATPase subunit interface; other site 572479000510 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572479000511 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 572479000512 Walker A/P-loop; other site 572479000513 ATP binding site [chemical binding]; other site 572479000514 Q-loop/lid; other site 572479000515 ABC transporter signature motif; other site 572479000516 Walker B; other site 572479000517 D-loop; other site 572479000518 H-loop/switch region; other site 572479000519 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 572479000520 CPxP motif; other site 572479000521 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 572479000522 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 572479000523 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 572479000524 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 572479000525 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; cl00436 572479000526 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 572479000527 CPxP motif; other site 572479000528 DsrE/DsrF-like family; Region: DrsE; pfam02635 572479000529 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 572479000530 dimerization interface [polypeptide binding]; other site 572479000531 putative ATP binding site [chemical binding]; other site 572479000532 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 572479000533 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 572479000534 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 572479000535 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; pfam07355 572479000536 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 572479000537 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 572479000538 BCCT family transporter; Region: BCCT; pfam02028 572479000539 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572479000540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572479000541 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 572479000542 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479000543 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479000544 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 572479000545 catalytic residues [active] 572479000546 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 572479000547 catalytic residues [active] 572479000548 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 572479000549 active site 572479000550 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 572479000551 Probable transposase; Region: OrfB_IS605; pfam01385 572479000552 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 572479000553 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 572479000554 Transposase IS200 like; Region: Y1_Tnp; pfam01797 572479000555 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 572479000556 active site 572479000557 phosphorylation site [posttranslational modification] 572479000558 glutamine amidotransferase subunit PdxT; Provisional; Region: PRK13525 572479000559 conserved cys residue [active] 572479000560 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 572479000561 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 572479000562 active site 572479000563 multimer interface [polypeptide binding]; other site 572479000564 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 572479000565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572479000566 DNA-binding site [nucleotide binding]; DNA binding site 572479000567 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 572479000568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479000569 homodimer interface [polypeptide binding]; other site 572479000570 catalytic residue [active] 572479000571 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 572479000572 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 572479000573 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 572479000574 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 572479000575 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 572479000576 ATP-grasp domain; Region: ATP-grasp; pfam02222 572479000577 AIR carboxylase; Region: AIRC; pfam00731 572479000578 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 572479000579 Adenylsuccinate lyase (ASL)_like; Region: Adenylsuccinate_lyase_like; cd01595 572479000580 tetramer interface [polypeptide binding]; other site 572479000581 active site 572479000582 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 572479000583 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 572479000584 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 572479000585 ATP binding site [chemical binding]; other site 572479000586 active site 572479000587 substrate binding site [chemical binding]; other site 572479000588 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 572479000589 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 572479000590 active site 572479000591 tetramer interface [polypeptide binding]; other site 572479000592 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479000593 active site 572479000594 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 572479000595 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 572479000596 dimerization interface [polypeptide binding]; other site 572479000597 putative ATP binding site [chemical binding]; other site 572479000598 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 572479000599 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 572479000600 active site 572479000601 substrate binding site [chemical binding]; other site 572479000602 cosubstrate binding site; other site 572479000603 catalytic site [active] 572479000604 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 572479000605 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 572479000606 purine monophosphate binding site [chemical binding]; other site 572479000607 dimer interface [polypeptide binding]; other site 572479000608 putative catalytic residues [active] 572479000609 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 572479000610 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 572479000611 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 572479000612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000613 active site 572479000614 phosphorylation site [posttranslational modification] 572479000615 intermolecular recognition site; other site 572479000616 dimerization interface [polypeptide binding]; other site 572479000617 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 572479000618 PAS fold; Region: PAS_4; pfam08448 572479000619 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479000620 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479000621 metal binding site [ion binding]; metal-binding site 572479000622 active site 572479000623 I-site; other site 572479000624 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 572479000625 EAL domain; Region: EAL; pfam00563 572479000626 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 572479000627 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 572479000628 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 572479000629 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 572479000630 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 572479000631 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 572479000632 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 572479000633 G1 box; other site 572479000634 GTP/Mg2+ binding site [chemical binding]; other site 572479000635 Switch I region; other site 572479000636 G2 box; other site 572479000637 G3 box; other site 572479000638 Switch II region; other site 572479000639 G4 box; other site 572479000640 G5 box; other site 572479000641 Nucleoside recognition; Region: Gate; pfam07670 572479000642 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 572479000643 Nucleoside recognition; Region: Gate; pfam07670 572479000644 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 572479000645 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 572479000646 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 572479000647 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 572479000648 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 572479000649 G1 box; other site 572479000650 GTP/Mg2+ binding site [chemical binding]; other site 572479000651 Switch I region; other site 572479000652 G2 box; other site 572479000653 G3 box; other site 572479000654 Switch II region; other site 572479000655 G4 box; other site 572479000656 G5 box; other site 572479000657 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 572479000658 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572479000659 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479000660 Zn2+ binding site [ion binding]; other site 572479000661 Mg2+ binding site [ion binding]; other site 572479000662 flavodoxin FldA; Validated; Region: PRK09267 572479000663 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 572479000664 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572479000665 metal binding site 2 [ion binding]; metal-binding site 572479000666 putative DNA binding helix; other site 572479000667 metal binding site 1 [ion binding]; metal-binding site 572479000668 dimer interface [polypeptide binding]; other site 572479000669 structural Zn2+ binding site [ion binding]; other site 572479000670 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 572479000671 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479000672 dimer interface [polypeptide binding]; other site 572479000673 putative CheW interface [polypeptide binding]; other site 572479000674 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 572479000675 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 572479000676 ABC-ATPase subunit interface; other site 572479000677 dimer interface [polypeptide binding]; other site 572479000678 putative PBP binding regions; other site 572479000679 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 572479000680 ABC-ATPase subunit interface; other site 572479000681 dimer interface [polypeptide binding]; other site 572479000682 putative PBP binding regions; other site 572479000683 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 572479000684 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 572479000685 Walker A/P-loop; other site 572479000686 ATP binding site [chemical binding]; other site 572479000687 Q-loop/lid; other site 572479000688 ABC transporter signature motif; other site 572479000689 Walker B; other site 572479000690 D-loop; other site 572479000691 H-loop/switch region; other site 572479000692 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 572479000693 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 572479000694 putative ligand binding residues [chemical binding]; other site 572479000695 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572479000696 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572479000697 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572479000698 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572479000699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479000700 Walker A/P-loop; other site 572479000701 ATP binding site [chemical binding]; other site 572479000702 Q-loop/lid; other site 572479000703 ABC transporter signature motif; other site 572479000704 Walker B; other site 572479000705 D-loop; other site 572479000706 H-loop/switch region; other site 572479000707 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572479000708 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572479000709 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479000710 Walker A/P-loop; other site 572479000711 ATP binding site [chemical binding]; other site 572479000712 Q-loop/lid; other site 572479000713 ABC transporter signature motif; other site 572479000714 Walker B; other site 572479000715 D-loop; other site 572479000716 H-loop/switch region; other site 572479000717 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 572479000718 Carbon starvation protein CstA; Region: CstA; pfam02554 572479000719 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 572479000720 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 572479000721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000722 active site 572479000723 phosphorylation site [posttranslational modification] 572479000724 intermolecular recognition site; other site 572479000725 dimerization interface [polypeptide binding]; other site 572479000726 LytTr DNA-binding domain; Region: LytTR; smart00850 572479000727 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 572479000728 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 572479000729 GAF domain; Region: GAF; cl17456 572479000730 Histidine kinase; Region: His_kinase; pfam06580 572479000731 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 572479000732 Mg2+ binding site [ion binding]; other site 572479000733 G-X-G motif; other site 572479000734 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 572479000735 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 572479000736 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 572479000737 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 572479000738 oligomer interface [polypeptide binding]; other site 572479000739 metal binding site [ion binding]; metal-binding site 572479000740 metal binding site [ion binding]; metal-binding site 572479000741 Cl binding site [ion binding]; other site 572479000742 aspartate ring; other site 572479000743 basic sphincter; other site 572479000744 putative hydrophobic gate; other site 572479000745 periplasmic entrance; other site 572479000746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 572479000747 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 572479000748 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 572479000749 intersubunit interface [polypeptide binding]; other site 572479000750 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 572479000751 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 572479000752 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 572479000753 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 572479000754 ABC-ATPase subunit interface; other site 572479000755 dimer interface [polypeptide binding]; other site 572479000756 putative PBP binding regions; other site 572479000757 ATP cone domain; Region: ATP-cone; pfam03477 572479000758 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 572479000759 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 572479000760 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 572479000761 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 572479000762 FeS/SAM binding site; other site 572479000763 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 572479000764 FIST N domain; Region: FIST; pfam08495 572479000765 Uncharacterized conserved protein [Function unknown]; Region: COG3287 572479000766 FIST C domain; Region: FIST_C; pfam10442 572479000767 GAF domain; Region: GAF; cl17456 572479000768 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479000769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479000770 metal binding site [ion binding]; metal-binding site 572479000771 active site 572479000772 I-site; other site 572479000773 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 572479000774 DNA-binding site [nucleotide binding]; DNA binding site 572479000775 RNA-binding motif; other site 572479000776 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 572479000777 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 572479000778 active site 572479000779 Na/Ca binding site [ion binding]; other site 572479000780 catalytic site [active] 572479000781 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 572479000782 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 572479000783 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 572479000784 catalytic triad [active] 572479000785 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 572479000786 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 572479000787 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572479000788 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479000789 dimer interface [polypeptide binding]; other site 572479000790 conserved gate region; other site 572479000791 putative PBP binding loops; other site 572479000792 ABC-ATPase subunit interface; other site 572479000793 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 572479000794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479000795 dimer interface [polypeptide binding]; other site 572479000796 conserved gate region; other site 572479000797 putative PBP binding loops; other site 572479000798 ABC-ATPase subunit interface; other site 572479000799 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 572479000800 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 572479000801 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572479000802 catalytic residue [active] 572479000803 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 572479000804 PhoU domain; Region: PhoU; pfam01895 572479000805 PhoU domain; Region: PhoU; pfam01895 572479000806 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 572479000807 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 572479000808 putative active site [active] 572479000809 putative NTP binding site [chemical binding]; other site 572479000810 putative nucleic acid binding site [nucleotide binding]; other site 572479000811 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 572479000812 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 572479000813 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 572479000814 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 572479000815 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 572479000816 active site 572479000817 metal binding site [ion binding]; metal-binding site 572479000818 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 572479000819 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 572479000820 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 572479000821 hypothetical protein; Provisional; Region: PRK00955 572479000822 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 572479000823 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572479000824 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479000825 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 572479000826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479000827 dimer interface [polypeptide binding]; other site 572479000828 conserved gate region; other site 572479000829 putative PBP binding loops; other site 572479000830 ABC-ATPase subunit interface; other site 572479000831 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479000832 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479000833 dimer interface [polypeptide binding]; other site 572479000834 ABC-ATPase subunit interface; other site 572479000835 putative PBP binding loops; other site 572479000836 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572479000837 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572479000838 DNA binding site [nucleotide binding] 572479000839 domain linker motif; other site 572479000840 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 572479000841 ligand binding site [chemical binding]; other site 572479000842 dimerization interface [polypeptide binding]; other site 572479000843 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 572479000844 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 572479000845 Ca binding site [ion binding]; other site 572479000846 active site 572479000847 catalytic site [active] 572479000848 phenylhydantoinase; Validated; Region: PRK08323 572479000849 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 572479000850 active site 572479000851 AAA domain; Region: AAA_32; pfam13654 572479000852 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 572479000853 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 572479000854 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 572479000855 active site 572479000856 dimer interface [polypeptide binding]; other site 572479000857 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 572479000858 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 572479000859 putative dimer interface [polypeptide binding]; other site 572479000860 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 572479000861 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 572479000862 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572479000863 catalytic residue [active] 572479000864 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 572479000865 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 572479000866 GAF domain; Region: GAF_2; pfam13185 572479000867 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 572479000868 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 572479000869 motif II; other site 572479000870 maltose phosphorylase; Provisional; Region: PRK13807 572479000871 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 572479000872 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 572479000873 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 572479000874 ZIP Zinc transporter; Region: Zip; pfam02535 572479000875 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 572479000876 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 572479000877 ZIP Zinc transporter; Region: Zip; pfam02535 572479000878 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 572479000879 DNA-binding site [nucleotide binding]; DNA binding site 572479000880 RNA-binding motif; other site 572479000881 Response regulator receiver domain; Region: Response_reg; pfam00072 572479000882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000883 active site 572479000884 phosphorylation site [posttranslational modification] 572479000885 intermolecular recognition site; other site 572479000886 dimerization interface [polypeptide binding]; other site 572479000887 Cache domain; Region: Cache_1; pfam02743 572479000888 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 572479000889 dimerization interface [polypeptide binding]; other site 572479000890 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479000891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479000892 metal binding site [ion binding]; metal-binding site 572479000893 active site 572479000894 I-site; other site 572479000895 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 572479000896 Cache domain; Region: Cache_1; pfam02743 572479000897 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 572479000898 dimerization interface [polypeptide binding]; other site 572479000899 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479000900 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479000901 dimer interface [polypeptide binding]; other site 572479000902 putative CheW interface [polypeptide binding]; other site 572479000903 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 572479000904 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 572479000905 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 572479000906 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479000907 active site 572479000908 phosphorylation site [posttranslational modification] 572479000909 intermolecular recognition site; other site 572479000910 dimerization interface [polypeptide binding]; other site 572479000911 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 572479000912 Cache domain; Region: Cache_1; pfam02743 572479000913 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 572479000914 dimerization interface [polypeptide binding]; other site 572479000915 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479000916 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479000917 metal binding site [ion binding]; metal-binding site 572479000918 active site 572479000919 I-site; other site 572479000920 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 572479000921 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 572479000922 DNA-binding site [nucleotide binding]; DNA binding site 572479000923 RNA-binding motif; other site 572479000924 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 572479000925 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 572479000926 G1 box; other site 572479000927 putative GEF interaction site [polypeptide binding]; other site 572479000928 GTP/Mg2+ binding site [chemical binding]; other site 572479000929 Switch I region; other site 572479000930 G2 box; other site 572479000931 G3 box; other site 572479000932 Switch II region; other site 572479000933 G4 box; other site 572479000934 G5 box; other site 572479000935 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 572479000936 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 572479000937 Rubrerythrin [Energy production and conversion]; Region: COG1592 572479000938 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 572479000939 binuclear metal center [ion binding]; other site 572479000940 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 572479000941 iron binding site [ion binding]; other site 572479000942 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 572479000943 non-heme iron binding site [ion binding]; other site 572479000944 putative kinase; Provisional; Region: PRK09954 572479000945 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 572479000946 DNA binding residues [nucleotide binding] 572479000947 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 572479000948 substrate binding site [chemical binding]; other site 572479000949 ATP binding site [chemical binding]; other site 572479000950 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 572479000951 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572479000952 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479000953 dimer interface [polypeptide binding]; other site 572479000954 conserved gate region; other site 572479000955 putative PBP binding loops; other site 572479000956 ABC-ATPase subunit interface; other site 572479000957 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 572479000958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479000959 dimer interface [polypeptide binding]; other site 572479000960 conserved gate region; other site 572479000961 putative PBP binding loops; other site 572479000962 ABC-ATPase subunit interface; other site 572479000963 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 572479000964 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 572479000965 Predicted permease; Region: DUF318; cl17795 572479000966 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 572479000967 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 572479000968 active site 572479000969 dimer interface [polypeptide binding]; other site 572479000970 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 572479000971 dimer interface [polypeptide binding]; other site 572479000972 active site 572479000973 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 572479000974 NAD synthetase; Provisional; Region: PRK13980 572479000975 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 572479000976 homodimer interface [polypeptide binding]; other site 572479000977 NAD binding pocket [chemical binding]; other site 572479000978 ATP binding pocket [chemical binding]; other site 572479000979 Mg binding site [ion binding]; other site 572479000980 active-site loop [active] 572479000981 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 572479000982 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 572479000983 cobalamin binding residues [chemical binding]; other site 572479000984 putative BtuC binding residues; other site 572479000985 dimer interface [polypeptide binding]; other site 572479000986 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 572479000987 hexamer interface [polypeptide binding]; other site 572479000988 RNA binding site [nucleotide binding]; other site 572479000989 Histidine-zinc binding site [chemical binding]; other site 572479000990 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572479000991 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572479000992 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 572479000993 Walker A/P-loop; other site 572479000994 ATP binding site [chemical binding]; other site 572479000995 Q-loop/lid; other site 572479000996 ABC transporter signature motif; other site 572479000997 Walker B; other site 572479000998 D-loop; other site 572479000999 H-loop/switch region; other site 572479001000 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 572479001001 putative acyl-acceptor binding pocket; other site 572479001002 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 572479001003 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 572479001004 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 572479001005 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 572479001006 Ligand binding site; other site 572479001007 oligomer interface; other site 572479001008 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 572479001009 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 572479001010 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 572479001011 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 572479001012 putative active site [active] 572479001013 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 572479001014 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 572479001015 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 572479001016 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 572479001017 putative acyl-acceptor binding pocket; other site 572479001018 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 572479001019 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 572479001020 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572479001021 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 572479001022 putative active site [active] 572479001023 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572479001024 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 572479001025 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 572479001026 putative active site [active] 572479001027 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 572479001028 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 572479001029 putative metal binding site; other site 572479001030 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572479001031 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 572479001032 putative ADP-binding pocket [chemical binding]; other site 572479001033 O-Antigen ligase; Region: Wzy_C; pfam04932 572479001034 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 572479001035 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572479001036 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 572479001037 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572479001038 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 572479001039 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572479001040 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 572479001041 putative ADP-binding pocket [chemical binding]; other site 572479001042 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572479001043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572479001044 NAD(P) binding site [chemical binding]; other site 572479001045 active site 572479001046 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 572479001047 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 572479001048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479001049 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572479001050 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 572479001051 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 572479001052 putative hexamer interface [polypeptide binding]; other site 572479001053 putative hexagonal pore; other site 572479001054 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 572479001055 putative hexamer interface [polypeptide binding]; other site 572479001056 putative hexagonal pore; other site 572479001057 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 572479001058 putative hexamer interface [polypeptide binding]; other site 572479001059 putative hexagonal pore; other site 572479001060 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 572479001061 G1 box; other site 572479001062 GTP/Mg2+ binding site [chemical binding]; other site 572479001063 G2 box; other site 572479001064 Switch I region; other site 572479001065 G3 box; other site 572479001066 Switch II region; other site 572479001067 G4 box; other site 572479001068 G5 box; other site 572479001069 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 572479001070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479001071 active site 572479001072 phosphorylation site [posttranslational modification] 572479001073 intermolecular recognition site; other site 572479001074 dimerization interface [polypeptide binding]; other site 572479001075 ANTAR domain; Region: ANTAR; pfam03861 572479001076 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 572479001077 PAS domain; Region: PAS_9; pfam13426 572479001078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 572479001079 Histidine kinase; Region: HisKA_2; pfam07568 572479001080 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 572479001081 ATP binding site [chemical binding]; other site 572479001082 Mg2+ binding site [ion binding]; other site 572479001083 G-X-G motif; other site 572479001084 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 572479001085 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572479001086 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 572479001087 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 572479001088 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 572479001089 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 572479001090 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 572479001091 putative hexamer interface [polypeptide binding]; other site 572479001092 putative hexagonal pore; other site 572479001093 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 572479001094 putative hexamer interface [polypeptide binding]; other site 572479001095 putative hexagonal pore; other site 572479001096 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 572479001097 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 572479001098 Hexamer interface [polypeptide binding]; other site 572479001099 Hexagonal pore residue; other site 572479001100 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 572479001101 putative catalytic cysteine [active] 572479001102 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 572479001103 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 572479001104 Hexamer interface [polypeptide binding]; other site 572479001105 Putative hexagonal pore residue; other site 572479001106 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 572479001107 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 572479001108 Propanediol utilisation protein PduL; Region: PduL; pfam06130 572479001109 Propanediol utilisation protein PduL; Region: PduL; pfam06130 572479001110 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 572479001111 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572479001112 nucleotide binding site [chemical binding]; other site 572479001113 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 572479001114 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 572479001115 Hexamer/Pentamer interface [polypeptide binding]; other site 572479001116 central pore; other site 572479001117 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 572479001118 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 572479001119 Hexamer interface [polypeptide binding]; other site 572479001120 Putative hexagonal pore residue; other site 572479001121 Ethanolamine utilisation protein, EutH; Region: EutH; pfam04346 572479001122 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 572479001123 SLBB domain; Region: SLBB; pfam10531 572479001124 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 572479001125 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 572479001126 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 572479001127 putative hexamer interface [polypeptide binding]; other site 572479001128 putative hexagonal pore; other site 572479001129 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 572479001130 putative hexamer interface [polypeptide binding]; other site 572479001131 putative hexagonal pore; other site 572479001132 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572479001133 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572479001134 active site 572479001135 NAD binding site [chemical binding]; other site 572479001136 metal binding site [ion binding]; metal-binding site 572479001137 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 572479001138 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 572479001139 DNA binding residues [nucleotide binding] 572479001140 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 572479001141 Cupin domain; Region: Cupin_2; cl17218 572479001142 Domain of unknown function DUF77; Region: DUF77; pfam01910 572479001143 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 572479001144 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 572479001145 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 572479001146 NMT1/THI5 like; Region: NMT1; pfam09084 572479001147 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 572479001148 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 572479001149 Walker A/P-loop; other site 572479001150 ATP binding site [chemical binding]; other site 572479001151 Q-loop/lid; other site 572479001152 ABC transporter signature motif; other site 572479001153 Walker B; other site 572479001154 D-loop; other site 572479001155 H-loop/switch region; other site 572479001156 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 572479001157 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 572479001158 homotetramer interface [polypeptide binding]; other site 572479001159 ligand binding site [chemical binding]; other site 572479001160 catalytic site [active] 572479001161 NAD binding site [chemical binding]; other site 572479001162 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 572479001163 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 572479001164 active site 572479001165 metal binding site [ion binding]; metal-binding site 572479001166 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 572479001167 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 572479001168 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 572479001169 active site 572479001170 metal binding site [ion binding]; metal-binding site 572479001171 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 572479001172 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 572479001173 UbiA prenyltransferase family; Region: UbiA; pfam01040 572479001174 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 572479001175 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 572479001176 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 572479001177 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 572479001178 Walker A/P-loop; other site 572479001179 ATP binding site [chemical binding]; other site 572479001180 Q-loop/lid; other site 572479001181 ABC transporter signature motif; other site 572479001182 Walker B; other site 572479001183 D-loop; other site 572479001184 H-loop/switch region; other site 572479001185 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 572479001186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479001187 ABC-ATPase subunit interface; other site 572479001188 putative PBP binding loops; other site 572479001189 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 572479001190 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572479001191 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572479001192 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 572479001193 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 572479001194 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479001195 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479001196 metal binding site [ion binding]; metal-binding site 572479001197 active site 572479001198 I-site; other site 572479001199 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 572479001200 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 572479001201 putative ligand binding site [chemical binding]; other site 572479001202 putative NAD binding site [chemical binding]; other site 572479001203 catalytic site [active] 572479001204 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 572479001205 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 572479001206 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 572479001207 active site 572479001208 catalytic tetrad [active] 572479001209 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 572479001210 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 572479001211 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 572479001212 putative active site [active] 572479001213 heme pocket [chemical binding]; other site 572479001214 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 572479001215 dimer interface [polypeptide binding]; other site 572479001216 phosphorylation site [posttranslational modification] 572479001217 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 572479001218 ATP binding site [chemical binding]; other site 572479001219 Mg2+ binding site [ion binding]; other site 572479001220 G-X-G motif; other site 572479001221 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572479001222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479001223 active site 572479001224 phosphorylation site [posttranslational modification] 572479001225 intermolecular recognition site; other site 572479001226 dimerization interface [polypeptide binding]; other site 572479001227 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 572479001228 DNA binding site [nucleotide binding] 572479001229 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 572479001230 Int/Topo IB signature motif; other site 572479001231 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 572479001232 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 572479001233 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 572479001234 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 572479001235 NAD(P) binding site [chemical binding]; other site 572479001236 homodimer interface [polypeptide binding]; other site 572479001237 substrate binding site [chemical binding]; other site 572479001238 active site 572479001239 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 572479001240 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 572479001241 inhibitor-cofactor binding pocket; inhibition site 572479001242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479001243 catalytic residue [active] 572479001244 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 572479001245 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 572479001246 putative trimer interface [polypeptide binding]; other site 572479001247 putative CoA binding site [chemical binding]; other site 572479001248 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 572479001249 NeuB family; Region: NeuB; pfam03102 572479001250 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 572479001251 NeuB binding interface [polypeptide binding]; other site 572479001252 putative substrate binding site [chemical binding]; other site 572479001253 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 572479001254 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 572479001255 active site 572479001256 homodimer interface [polypeptide binding]; other site 572479001257 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 572479001258 ligand binding site; other site 572479001259 tetramer interface; other site 572479001260 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_III; cd01996 572479001261 Ligand Binding Site [chemical binding]; other site 572479001262 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 572479001263 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 572479001264 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 572479001265 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 572479001266 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 572479001267 trimer interface [polypeptide binding]; other site 572479001268 active site 572479001269 substrate binding site [chemical binding]; other site 572479001270 CoA binding site [chemical binding]; other site 572479001271 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 572479001272 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 572479001273 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 572479001274 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 572479001275 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 572479001276 putative ADP-binding pocket [chemical binding]; other site 572479001277 Helix-turn-helix domain; Region: HTH_38; pfam13936 572479001278 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 572479001279 Integrase core domain; Region: rve; pfam00665 572479001280 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572479001281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572479001282 NAD(P) binding site [chemical binding]; other site 572479001283 active site 572479001284 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572479001285 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 572479001286 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572479001287 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_4; cd03795 572479001288 putative ADP-binding pocket [chemical binding]; other site 572479001289 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 572479001290 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 572479001291 Substrate binding site; other site 572479001292 Cupin domain; Region: Cupin_2; cl17218 572479001293 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 572479001294 trimer interface [polypeptide binding]; other site 572479001295 active site 572479001296 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 572479001297 Part of AAA domain; Region: AAA_19; pfam13245 572479001298 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 572479001299 Family description; Region: UvrD_C_2; pfam13538 572479001300 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 572479001301 SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In...; Region: SoSSB_OBF; cd04491 572479001302 generic binding surface II; other site 572479001303 generic binding surface I; other site 572479001304 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 572479001305 Bacterial sugar transferase; Region: Bac_transf; pfam02397 572479001306 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572479001307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572479001308 NAD(P) binding site [chemical binding]; other site 572479001309 active site 572479001310 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572479001311 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 572479001312 active site 572479001313 metal binding site [ion binding]; metal-binding site 572479001314 homotetramer interface [polypeptide binding]; other site 572479001315 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572479001316 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572479001317 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 572479001318 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572479001319 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572479001320 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 572479001321 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572479001322 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 572479001323 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572479001324 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 572479001325 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 572479001326 metal binding site [ion binding]; metal-binding site 572479001327 dimer interface [polypeptide binding]; other site 572479001328 OPT oligopeptide transporter protein; Region: OPT; cl14607 572479001329 putative oligopeptide transporter, OPT family; Region: TIGR00733 572479001330 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 572479001331 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 572479001332 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 572479001333 ligand binding site [chemical binding]; other site 572479001334 homodimer interface [polypeptide binding]; other site 572479001335 NAD(P) binding site [chemical binding]; other site 572479001336 trimer interface B [polypeptide binding]; other site 572479001337 trimer interface A [polypeptide binding]; other site 572479001338 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 572479001339 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 572479001340 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 572479001341 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 572479001342 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 572479001343 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 572479001344 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 572479001345 NAD(P) binding site [chemical binding]; other site 572479001346 homodimer interface [polypeptide binding]; other site 572479001347 substrate binding site [chemical binding]; other site 572479001348 active site 572479001349 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572479001350 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572479001351 DNA-binding site [nucleotide binding]; DNA binding site 572479001352 UTRA domain; Region: UTRA; pfam07702 572479001353 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 572479001354 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 572479001355 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 572479001356 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 572479001357 dimer interface [polypeptide binding]; other site 572479001358 active site 572479001359 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 572479001360 putative active site [active] 572479001361 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 572479001362 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 572479001363 active site 572479001364 dimer interface [polypeptide binding]; other site 572479001365 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572479001366 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479001367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479001368 dimer interface [polypeptide binding]; other site 572479001369 conserved gate region; other site 572479001370 putative PBP binding loops; other site 572479001371 ABC-ATPase subunit interface; other site 572479001372 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479001373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479001374 dimer interface [polypeptide binding]; other site 572479001375 conserved gate region; other site 572479001376 putative PBP binding loops; other site 572479001377 ABC-ATPase subunit interface; other site 572479001378 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 572479001379 intersubunit interface [polypeptide binding]; other site 572479001380 active site 572479001381 zinc binding site [ion binding]; other site 572479001382 Na+ binding site [ion binding]; other site 572479001383 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 572479001384 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 572479001385 putative substrate binding site [chemical binding]; other site 572479001386 putative ATP binding site [chemical binding]; other site 572479001387 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 572479001388 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 572479001389 M20 Peptidase Aminoacylase 1-like protein 2, amidohydrolase family; Region: M20_Acy1L2_like_2; cd09849 572479001390 metal binding site [ion binding]; metal-binding site 572479001391 Protein of unknown function (DUF969); Region: DUF969; pfam06149 572479001392 Predicted membrane protein [Function unknown]; Region: COG3817 572479001393 Protein of unknown function (DUF979); Region: DUF979; pfam06166 572479001394 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 572479001395 putative substrate binding pocket [chemical binding]; other site 572479001396 AC domain interface; other site 572479001397 catalytic triad [active] 572479001398 AB domain interface; other site 572479001399 interchain disulfide; other site 572479001400 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572479001401 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 572479001402 ligand binding site [chemical binding]; other site 572479001403 flexible hinge region; other site 572479001404 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 572479001405 putative switch regulator; other site 572479001406 non-specific DNA interactions [nucleotide binding]; other site 572479001407 DNA binding site [nucleotide binding] 572479001408 sequence specific DNA binding site [nucleotide binding]; other site 572479001409 putative cAMP binding site [chemical binding]; other site 572479001410 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 572479001411 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572479001412 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479001413 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479001414 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479001415 dimer interface [polypeptide binding]; other site 572479001416 conserved gate region; other site 572479001417 putative PBP binding loops; other site 572479001418 ABC-ATPase subunit interface; other site 572479001419 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479001420 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479001421 dimer interface [polypeptide binding]; other site 572479001422 conserved gate region; other site 572479001423 putative PBP binding loops; other site 572479001424 ABC-ATPase subunit interface; other site 572479001425 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 572479001426 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 572479001427 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 572479001428 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 572479001429 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 572479001430 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 572479001431 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 572479001432 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 572479001433 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 572479001434 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 572479001435 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572479001436 DNA binding site [nucleotide binding] 572479001437 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 572479001438 putative ligand binding site [chemical binding]; other site 572479001439 putative dimerization interface [polypeptide binding]; other site 572479001440 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 572479001441 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 572479001442 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 572479001443 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 572479001444 Active Sites [active] 572479001445 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 572479001446 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 572479001447 CysD dimerization site [polypeptide binding]; other site 572479001448 G1 box; other site 572479001449 putative GEF interaction site [polypeptide binding]; other site 572479001450 GTP/Mg2+ binding site [chemical binding]; other site 572479001451 Switch I region; other site 572479001452 G2 box; other site 572479001453 G3 box; other site 572479001454 Switch II region; other site 572479001455 G4 box; other site 572479001456 G5 box; other site 572479001457 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 572479001458 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 572479001459 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 572479001460 active site 572479001461 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 572479001462 ligand-binding site [chemical binding]; other site 572479001463 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 572479001464 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 572479001465 transmembrane helices; other site 572479001466 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 572479001467 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 572479001468 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 572479001469 binding surface 572479001470 TPR motif; other site 572479001471 TPR repeat; Region: TPR_11; pfam13414 572479001472 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 572479001473 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 572479001474 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 572479001475 ATP binding site [chemical binding]; other site 572479001476 putative Mg++ binding site [ion binding]; other site 572479001477 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 572479001478 nucleotide binding region [chemical binding]; other site 572479001479 ATP-binding site [chemical binding]; other site 572479001480 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 572479001481 active site 572479001482 tetramer interface [polypeptide binding]; other site 572479001483 Probable transposase; Region: OrfB_IS605; pfam01385 572479001484 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 572479001485 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 572479001486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 572479001487 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 572479001488 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 572479001489 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572479001490 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 572479001491 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 572479001492 Sulfatase; Region: Sulfatase; pfam00884 572479001493 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 572479001494 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 572479001495 active site 572479001496 catalytic site [active] 572479001497 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 572479001498 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 572479001499 dimer interface [polypeptide binding]; other site 572479001500 active site 572479001501 metal binding site [ion binding]; metal-binding site 572479001502 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 572479001503 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 572479001504 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 572479001505 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 572479001506 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 572479001507 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 572479001508 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 572479001509 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572479001510 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 572479001511 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572479001512 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572479001513 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 572479001514 dinuclear metal binding motif [ion binding]; other site 572479001515 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479001516 Zn2+ binding site [ion binding]; other site 572479001517 Mg2+ binding site [ion binding]; other site 572479001518 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479001519 Zn2+ binding site [ion binding]; other site 572479001520 Mg2+ binding site [ion binding]; other site 572479001521 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 572479001522 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 572479001523 anti sigma factor interaction site; other site 572479001524 regulatory phosphorylation site [posttranslational modification]; other site 572479001525 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 572479001526 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 572479001527 anti sigma factor interaction site; other site 572479001528 regulatory phosphorylation site [posttranslational modification]; other site 572479001529 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 572479001530 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 572479001531 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 572479001532 dimerization interface [polypeptide binding]; other site 572479001533 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479001534 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479001535 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479001536 dimer interface [polypeptide binding]; other site 572479001537 putative CheW interface [polypeptide binding]; other site 572479001538 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 572479001539 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 572479001540 metal binding site [ion binding]; metal-binding site 572479001541 dimer interface [polypeptide binding]; other site 572479001542 aminotransferase AlaT; Validated; Region: PRK09265 572479001543 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 572479001544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479001545 homodimer interface [polypeptide binding]; other site 572479001546 catalytic residue [active] 572479001547 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 572479001548 DctM-like transporters; Region: DctM; pfam06808 572479001549 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 572479001550 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 572479001551 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 572479001552 substrate binding pocket [chemical binding]; other site 572479001553 membrane-bound complex binding site; other site 572479001554 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 572479001555 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 572479001556 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 572479001557 FeS/SAM binding site; other site 572479001558 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 572479001559 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 572479001560 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 572479001561 G1 box; other site 572479001562 GTP/Mg2+ binding site [chemical binding]; other site 572479001563 Switch I region; other site 572479001564 G2 box; other site 572479001565 Switch II region; other site 572479001566 G3 box; other site 572479001567 G4 box; other site 572479001568 G5 box; other site 572479001569 biotin synthase; Provisional; Region: PRK07094 572479001570 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 572479001571 FeS/SAM binding site; other site 572479001572 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 572479001573 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 572479001574 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 572479001575 Sulfate transporter family; Region: Sulfate_transp; pfam00916 572479001576 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 572479001577 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 572479001578 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 572479001579 TrkA-C domain; Region: TrkA_C; pfam02080 572479001580 TrkA-C domain; Region: TrkA_C; pfam02080 572479001581 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 572479001582 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 572479001583 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 572479001584 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 572479001585 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 572479001586 homodimer interface [polypeptide binding]; other site 572479001587 active site 572479001588 FMN binding site [chemical binding]; other site 572479001589 substrate binding site [chemical binding]; other site 572479001590 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 572479001591 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 572479001592 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 572479001593 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 572479001594 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 572479001595 dimer interface [polypeptide binding]; other site 572479001596 substrate binding site [chemical binding]; other site 572479001597 ATP binding site [chemical binding]; other site 572479001598 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 572479001599 thiamine phosphate binding site [chemical binding]; other site 572479001600 active site 572479001601 pyrophosphate binding site [ion binding]; other site 572479001602 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 572479001603 substrate binding site [chemical binding]; other site 572479001604 multimerization interface [polypeptide binding]; other site 572479001605 ATP binding site [chemical binding]; other site 572479001606 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 572479001607 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 572479001608 Predicted membrane protein [Function unknown]; Region: COG3601 572479001609 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 572479001610 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; pfam10069 572479001611 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; pfam10069 572479001612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479001613 Zn2+ binding site [ion binding]; other site 572479001614 Mg2+ binding site [ion binding]; other site 572479001615 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 572479001616 gating phenylalanine in ion channel; other site 572479001617 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 572479001618 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 572479001619 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 572479001620 catalytic residues [active] 572479001621 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 572479001622 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 572479001623 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 572479001624 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; pfam07355 572479001625 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 572479001626 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 572479001627 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 572479001628 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479001629 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479001630 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 572479001631 catalytic residues [active] 572479001632 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 572479001633 active site 572479001634 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 572479001635 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 572479001636 amino acid carrier protein; Region: agcS; TIGR00835 572479001637 Peptidase family C69; Region: Peptidase_C69; cl17793 572479001638 Peptidase family C69; Region: Peptidase_C69; cl17793 572479001639 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 572479001640 Response regulator receiver domain; Region: Response_reg; pfam00072 572479001641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479001642 active site 572479001643 phosphorylation site [posttranslational modification] 572479001644 intermolecular recognition site; other site 572479001645 dimerization interface [polypeptide binding]; other site 572479001646 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572479001647 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 572479001648 dimer interface [polypeptide binding]; other site 572479001649 phosphorylation site [posttranslational modification] 572479001650 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 572479001651 ATP binding site [chemical binding]; other site 572479001652 Mg2+ binding site [ion binding]; other site 572479001653 G-X-G motif; other site 572479001654 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 572479001655 active site 572479001656 Zn binding site [ion binding]; other site 572479001657 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 572479001658 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 572479001659 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 572479001660 argininosuccinate synthase; Provisional; Region: PRK13820 572479001661 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 572479001662 ANP binding site [chemical binding]; other site 572479001663 Substrate Binding Site II [chemical binding]; other site 572479001664 Substrate Binding Site I [chemical binding]; other site 572479001665 argininosuccinate lyase; Provisional; Region: PRK00855 572479001666 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 572479001667 active sites [active] 572479001668 tetramer interface [polypeptide binding]; other site 572479001669 Peptidase family M48; Region: Peptidase_M48; cl12018 572479001670 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572479001671 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479001672 Zn2+ binding site [ion binding]; other site 572479001673 Mg2+ binding site [ion binding]; other site 572479001674 Cell division protein FtsA; Region: FtsA; smart00842 572479001675 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572479001676 nucleotide binding site [chemical binding]; other site 572479001677 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 572479001678 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 572479001679 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 572479001680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 572479001681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 572479001682 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 572479001683 fumarate hydratase; Reviewed; Region: fumC; PRK00485 572479001684 Class II fumarases; Region: Fumarase_classII; cd01362 572479001685 active site 572479001686 tetramer interface [polypeptide binding]; other site 572479001687 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 572479001688 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572479001689 Predicted dehydrogenase [General function prediction only]; Region: COG0579 572479001690 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572479001691 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572479001692 SEC-C motif; Region: SEC-C; pfam02810 572479001693 Predicted membrane protein [Function unknown]; Region: COG4684 572479001694 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 572479001695 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 572479001696 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 572479001697 putative active site [active] 572479001698 putative NTP binding site [chemical binding]; other site 572479001699 putative nucleic acid binding site [nucleotide binding]; other site 572479001700 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 572479001701 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 572479001702 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 572479001703 motif II; other site 572479001704 mechanosensitive channel MscS; Provisional; Region: PRK10334 572479001705 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572479001706 DJ-1 family protein; Region: not_thiJ; TIGR01383 572479001707 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 572479001708 conserved cys residue [active] 572479001709 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 572479001710 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 572479001711 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 572479001712 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 572479001713 putative ADP-binding pocket [chemical binding]; other site 572479001714 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 572479001715 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 572479001716 substrate binding site [chemical binding]; other site 572479001717 ATP binding site [chemical binding]; other site 572479001718 pullulanase, type I; Region: pulA_typeI; TIGR02104 572479001719 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 572479001720 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 572479001721 Ca binding site [ion binding]; other site 572479001722 active site 572479001723 catalytic site [active] 572479001724 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 572479001725 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 572479001726 oligomer interface; other site 572479001727 ligand binding site; other site 572479001728 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 572479001729 dimer interface [polypeptide binding]; other site 572479001730 N-terminal domain interface [polypeptide binding]; other site 572479001731 sulfate 1 binding site; other site 572479001732 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 572479001733 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 572479001734 ligand binding site; other site 572479001735 oligomer interface; other site 572479001736 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 572479001737 dimer interface [polypeptide binding]; other site 572479001738 N-terminal domain interface [polypeptide binding]; other site 572479001739 sulfate 1 binding site; other site 572479001740 glycogen branching enzyme; Provisional; Region: PRK12313 572479001741 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 572479001742 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 572479001743 active site 572479001744 catalytic site [active] 572479001745 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 572479001746 glycogen synthase; Provisional; Region: glgA; PRK00654 572479001747 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 572479001748 ADP-binding pocket [chemical binding]; other site 572479001749 homodimer interface [polypeptide binding]; other site 572479001750 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 572479001751 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 572479001752 trimer interface [polypeptide binding]; other site 572479001753 hexamer (dimer of trimers) interface [polypeptide binding]; other site 572479001754 substrate binding site [chemical binding]; other site 572479001755 Mn binding site [ion binding]; other site 572479001756 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 572479001757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479001758 Walker A/P-loop; other site 572479001759 ATP binding site [chemical binding]; other site 572479001760 Q-loop/lid; other site 572479001761 ABC transporter signature motif; other site 572479001762 Walker B; other site 572479001763 D-loop; other site 572479001764 H-loop/switch region; other site 572479001765 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 572479001766 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 572479001767 NMT1/THI5 like; Region: NMT1; pfam09084 572479001768 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 572479001769 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 572479001770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479001771 dimer interface [polypeptide binding]; other site 572479001772 conserved gate region; other site 572479001773 putative PBP binding loops; other site 572479001774 ABC-ATPase subunit interface; other site 572479001775 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 572479001776 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 572479001777 Walker A/P-loop; other site 572479001778 ATP binding site [chemical binding]; other site 572479001779 Q-loop/lid; other site 572479001780 ABC transporter signature motif; other site 572479001781 Walker B; other site 572479001782 D-loop; other site 572479001783 H-loop/switch region; other site 572479001784 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 572479001785 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 572479001786 active site 572479001787 nucleophile elbow; other site 572479001788 Uncharacterized conserved protein [Function unknown]; Region: COG3461 572479001789 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 572479001790 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 572479001791 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 572479001792 FeS/SAM binding site; other site 572479001793 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 572479001794 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 572479001795 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 572479001796 active site 572479001797 homodimer interface [polypeptide binding]; other site 572479001798 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 572479001799 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 572479001800 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 572479001801 dimer interface [polypeptide binding]; other site 572479001802 PYR/PP interface [polypeptide binding]; other site 572479001803 TPP binding site [chemical binding]; other site 572479001804 substrate binding site [chemical binding]; other site 572479001805 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 572479001806 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 572479001807 TPP-binding site [chemical binding]; other site 572479001808 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 572479001809 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 572479001810 Uncharacterized conserved protein [Function unknown]; Region: COG1633 572479001811 diiron binding motif [ion binding]; other site 572479001812 hybrid cluster protein; Provisional; Region: PRK05290 572479001813 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 572479001814 ACS interaction site; other site 572479001815 CODH interaction site; other site 572479001816 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 572479001817 hybrid metal cluster; other site 572479001818 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 572479001819 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 572479001820 dimerization interface [polypeptide binding]; other site 572479001821 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479001822 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479001823 dimer interface [polypeptide binding]; other site 572479001824 putative CheW interface [polypeptide binding]; other site 572479001825 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572479001826 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 572479001827 ligand binding site [chemical binding]; other site 572479001828 flexible hinge region; other site 572479001829 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 572479001830 putative switch regulator; other site 572479001831 non-specific DNA interactions [nucleotide binding]; other site 572479001832 DNA binding site [nucleotide binding] 572479001833 sequence specific DNA binding site [nucleotide binding]; other site 572479001834 putative cAMP binding site [chemical binding]; other site 572479001835 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 572479001836 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 572479001837 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 572479001838 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 572479001839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479001840 Walker A/P-loop; other site 572479001841 ATP binding site [chemical binding]; other site 572479001842 Q-loop/lid; other site 572479001843 ABC transporter signature motif; other site 572479001844 Walker B; other site 572479001845 D-loop; other site 572479001846 H-loop/switch region; other site 572479001847 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 572479001848 DAK2 domain; Region: Dak2; pfam02734 572479001849 EDD domain protein, DegV family; Region: DegV; TIGR00762 572479001850 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 572479001851 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 572479001852 Protein of unknown function (DUF523); Region: DUF523; pfam04463 572479001853 Uncharacterized conserved protein [Function unknown]; Region: COG3272 572479001854 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 572479001855 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 572479001856 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 572479001857 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 572479001858 Putative cyclase; Region: Cyclase; cl00814 572479001859 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 572479001860 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 572479001861 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 572479001862 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 572479001863 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 572479001864 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 572479001865 flagellar assembly protein FliW; Provisional; Region: PRK13285 572479001866 Global regulator protein family; Region: CsrA; pfam02599 572479001867 Flagellar protein FliS; Region: FliS; cl00654 572479001868 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 572479001869 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 572479001870 putative binding surface; other site 572479001871 active site 572479001872 P2 response regulator binding domain; Region: P2; pfam07194 572479001873 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 572479001874 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 572479001875 ATP binding site [chemical binding]; other site 572479001876 Mg2+ binding site [ion binding]; other site 572479001877 G-X-G motif; other site 572479001878 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 572479001879 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 572479001880 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 572479001881 CheC-like family; Region: CheC; pfam04509 572479001882 Chemotaxis phosphatase CheX; Region: CheX; cl15816 572479001883 CheC-like family; Region: CheC; pfam04509 572479001884 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13488 572479001885 Response regulator receiver domain; Region: Response_reg; pfam00072 572479001886 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479001887 active site 572479001888 phosphorylation site [posttranslational modification] 572479001889 intermolecular recognition site; other site 572479001890 dimerization interface [polypeptide binding]; other site 572479001891 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 572479001892 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 572479001893 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 572479001894 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 572479001895 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572479001896 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 572479001897 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 572479001898 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 572479001899 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 572479001900 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 572479001901 FliG C-terminal domain; Region: FliG_C; pfam01706 572479001902 Flagellar assembly protein FliH; Region: FliH; pfam02108 572479001903 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 572479001904 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 572479001905 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 572479001906 Walker A motif/ATP binding site; other site 572479001907 Walker B motif; other site 572479001908 Uncharacterized conserved protein [Function unknown]; Region: COG3334 572479001909 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 572479001910 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 572479001911 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 572479001912 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 572479001913 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 572479001914 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 572479001915 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 572479001916 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572479001917 Flagellar protein (FlbD); Region: FlbD; pfam06289 572479001918 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 572479001919 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 572479001920 flagellar motor protein MotS; Reviewed; Region: PRK06925 572479001921 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 572479001922 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 572479001923 ligand binding site [chemical binding]; other site 572479001924 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 572479001925 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 572479001926 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 572479001927 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 572479001928 CheC-like family; Region: CheC; pfam04509 572479001929 CheC-like family; Region: CheC; pfam04509 572479001930 flagellar motor switch protein FliN; Region: fliN; TIGR02480 572479001931 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 572479001932 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 572479001933 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 572479001934 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 572479001935 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 572479001936 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 572479001937 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 572479001938 FHIPEP family; Region: FHIPEP; pfam00771 572479001939 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 572479001940 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 572479001941 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 572479001942 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 572479001943 P-loop; other site 572479001944 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 572479001945 Flagellar protein YcgR; Region: YcgR_2; pfam12945 572479001946 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 572479001947 PilZ domain; Region: PilZ; pfam07238 572479001948 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 572479001949 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572479001950 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 572479001951 DNA binding residues [nucleotide binding] 572479001952 Protein of unknown function (DUF342); Region: DUF342; pfam03961 572479001953 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 572479001954 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 572479001955 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 572479001956 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 572479001957 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 572479001958 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572479001959 SAF-like; Region: SAF_2; pfam13144 572479001960 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 572479001961 Flagellar L-ring protein; Region: FlgH; cl17277 572479001962 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 572479001963 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 572479001964 Rod binding protein; Region: Rod-binding; cl01626 572479001965 Transcriptional regulators [Transcription]; Region: MarR; COG1846 572479001966 MarR family; Region: MarR_2; pfam12802 572479001967 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 572479001968 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 572479001969 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 572479001970 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 572479001971 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 572479001972 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 572479001973 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 572479001974 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 572479001975 dimer interface [polypeptide binding]; other site 572479001976 active site 572479001977 glycine-pyridoxal phosphate binding site [chemical binding]; other site 572479001978 folate binding site [chemical binding]; other site 572479001979 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572479001980 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 572479001981 active site 572479001982 motif I; other site 572479001983 motif II; other site 572479001984 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 572479001985 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 572479001986 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 572479001987 nucleotide binding site [chemical binding]; other site 572479001988 HPr kinase/phosphorylase; Provisional; Region: PRK05428 572479001989 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 572479001990 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 572479001991 Hpr binding site; other site 572479001992 active site 572479001993 homohexamer subunit interaction site [polypeptide binding]; other site 572479001994 DOMON-like domain of various glycoside hydrolases; Region: DOMON_glucodextranase_like; cd09626 572479001995 putative ligand binding site [chemical binding]; other site 572479001996 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 572479001997 substrate binding pocket [chemical binding]; other site 572479001998 substrate-Mg2+ binding site; other site 572479001999 aspartate-rich region 1; other site 572479002000 aspartate-rich region 2; other site 572479002001 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 572479002002 AAA domain; Region: AAA_33; pfam13671 572479002003 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 572479002004 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 572479002005 phosphate binding site [ion binding]; other site 572479002006 putative substrate binding pocket [chemical binding]; other site 572479002007 dimer interface [polypeptide binding]; other site 572479002008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 572479002009 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 572479002010 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 572479002011 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 572479002012 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 572479002013 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 572479002014 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 572479002015 Phosphoglycerate kinase; Region: PGK; pfam00162 572479002016 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 572479002017 substrate binding site [chemical binding]; other site 572479002018 hinge regions; other site 572479002019 ADP binding site [chemical binding]; other site 572479002020 catalytic site [active] 572479002021 triosephosphate isomerase; Provisional; Region: PRK14567 572479002022 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 572479002023 substrate binding site [chemical binding]; other site 572479002024 dimer interface [polypeptide binding]; other site 572479002025 catalytic triad [active] 572479002026 phosphoglyceromutase; Provisional; Region: PRK05434 572479002027 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 572479002028 enolase; Provisional; Region: eno; PRK00077 572479002029 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 572479002030 dimer interface [polypeptide binding]; other site 572479002031 metal binding site [ion binding]; metal-binding site 572479002032 substrate binding pocket [chemical binding]; other site 572479002033 Preprotein translocase SecG subunit; Region: SecG; pfam03840 572479002034 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 572479002035 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 572479002036 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 572479002037 CoenzymeA binding site [chemical binding]; other site 572479002038 subunit interaction site [polypeptide binding]; other site 572479002039 PHB binding site; other site 572479002040 ribonuclease R; Region: RNase_R; TIGR02063 572479002041 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 572479002042 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 572479002043 RNB domain; Region: RNB; pfam00773 572479002044 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 572479002045 RNA binding site [nucleotide binding]; other site 572479002046 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 572479002047 SmpB-tmRNA interface; other site 572479002048 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572479002049 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572479002050 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 572479002051 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 572479002052 active site 572479002053 trimer interface [polypeptide binding]; other site 572479002054 allosteric site; other site 572479002055 active site lid [active] 572479002056 hexamer (dimer of trimers) interface [polypeptide binding]; other site 572479002057 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572479002058 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572479002059 DNA-binding site [nucleotide binding]; DNA binding site 572479002060 UTRA domain; Region: UTRA; pfam07702 572479002061 Chromate transporter; Region: Chromate_transp; pfam02417 572479002062 Chromate transporter; Region: Chromate_transp; pfam02417 572479002063 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 572479002064 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 572479002065 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 572479002066 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 572479002067 Walker A/P-loop; other site 572479002068 ATP binding site [chemical binding]; other site 572479002069 Q-loop/lid; other site 572479002070 ABC transporter signature motif; other site 572479002071 Walker B; other site 572479002072 D-loop; other site 572479002073 H-loop/switch region; other site 572479002074 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 572479002075 putative active site [active] 572479002076 heme pocket [chemical binding]; other site 572479002077 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 572479002078 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 572479002079 putative active site [active] 572479002080 heme pocket [chemical binding]; other site 572479002081 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 572479002082 dimer interface [polypeptide binding]; other site 572479002083 phosphorylation site [posttranslational modification] 572479002084 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 572479002085 ATP binding site [chemical binding]; other site 572479002086 Mg2+ binding site [ion binding]; other site 572479002087 G-X-G motif; other site 572479002088 AMIN domain; Region: AMIN; pfam11741 572479002089 AMIN domain; Region: AMIN; pfam11741 572479002090 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 572479002091 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 572479002092 active site 572479002093 metal binding site [ion binding]; metal-binding site 572479002094 Sporulation and spore germination; Region: Germane; pfam10646 572479002095 glutamate racemase; Provisional; Region: PRK00865 572479002096 ribonuclease PH; Reviewed; Region: rph; PRK00173 572479002097 Ribonuclease PH; Region: RNase_PH_bact; cd11362 572479002098 hexamer interface [polypeptide binding]; other site 572479002099 active site 572479002100 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 572479002101 active site 572479002102 dimerization interface [polypeptide binding]; other site 572479002103 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572479002104 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572479002105 trigger factor; Provisional; Region: tig; PRK01490 572479002106 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 572479002107 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 572479002108 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 572479002109 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 572479002110 oligomer interface [polypeptide binding]; other site 572479002111 active site residues [active] 572479002112 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 572479002113 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 572479002114 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 572479002115 Walker A motif; other site 572479002116 ATP binding site [chemical binding]; other site 572479002117 Walker B motif; other site 572479002118 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572479002119 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 572479002120 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 572479002121 Walker A motif; other site 572479002122 ATP binding site [chemical binding]; other site 572479002123 Walker B motif; other site 572479002124 arginine finger; other site 572479002125 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 572479002126 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 572479002127 G1 box; other site 572479002128 GTP/Mg2+ binding site [chemical binding]; other site 572479002129 Switch I region; other site 572479002130 G2 box; other site 572479002131 G3 box; other site 572479002132 Switch II region; other site 572479002133 G4 box; other site 572479002134 G5 box; other site 572479002135 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 572479002136 S-adenosylmethionine binding site [chemical binding]; other site 572479002137 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 572479002138 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479002139 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 572479002140 ApbE family; Region: ApbE; pfam02424 572479002141 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 572479002142 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 572479002143 substrate binding pocket [chemical binding]; other site 572479002144 chain length determination region; other site 572479002145 substrate-Mg2+ binding site; other site 572479002146 catalytic residues [active] 572479002147 aspartate-rich region 1; other site 572479002148 active site lid residues [active] 572479002149 aspartate-rich region 2; other site 572479002150 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 572479002151 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 572479002152 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 572479002153 active site 572479002154 catalytic residues [active] 572479002155 Cache domain; Region: Cache_1; pfam02743 572479002156 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 572479002157 dimerization interface [polypeptide binding]; other site 572479002158 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479002159 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479002160 dimer interface [polypeptide binding]; other site 572479002161 putative CheW interface [polypeptide binding]; other site 572479002162 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 572479002163 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 572479002164 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572479002165 catalytic residue [active] 572479002166 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 572479002167 GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]; Region: TufB; COG0050 572479002168 G1 box; other site 572479002169 putative GEF interaction site [polypeptide binding]; other site 572479002170 GTP/Mg2+ binding site [chemical binding]; other site 572479002171 Switch I region; other site 572479002172 G2 box; other site 572479002173 G3 box; other site 572479002174 Switch II region; other site 572479002175 G4 box; other site 572479002176 G5 box; other site 572479002177 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 572479002178 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 572479002179 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 572479002180 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 572479002181 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 572479002182 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 572479002183 active site 572479002184 nucleophile elbow; other site 572479002185 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 572479002186 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 572479002187 ATP-binding site [chemical binding]; other site 572479002188 Sugar specificity; other site 572479002189 Pyrimidine base specificity; other site 572479002190 SLBB domain; Region: SLBB; pfam10531 572479002191 comEA protein; Region: comE; TIGR01259 572479002192 Helix-hairpin-helix motif; Region: HHH; pfam00633 572479002193 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 572479002194 Competence protein; Region: Competence; pfam03772 572479002195 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 572479002196 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572479002197 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 572479002198 DNA polymerase III, delta subunit; Region: holA; TIGR01128 572479002199 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 572479002200 GTP-binding protein LepA; Provisional; Region: PRK05433 572479002201 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 572479002202 G1 box; other site 572479002203 putative GEF interaction site [polypeptide binding]; other site 572479002204 GTP/Mg2+ binding site [chemical binding]; other site 572479002205 Switch I region; other site 572479002206 G2 box; other site 572479002207 G3 box; other site 572479002208 Switch II region; other site 572479002209 G4 box; other site 572479002210 G5 box; other site 572479002211 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 572479002212 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 572479002213 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 572479002214 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 572479002215 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 572479002216 FeS/SAM binding site; other site 572479002217 HemN C-terminal domain; Region: HemN_C; pfam06969 572479002218 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 572479002219 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 572479002220 GrpE; Region: GrpE; pfam01025 572479002221 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 572479002222 dimer interface [polypeptide binding]; other site 572479002223 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 572479002224 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 572479002225 chaperone protein DnaK; Region: prok_dnaK; TIGR02350 572479002226 nucleotide binding site [chemical binding]; other site 572479002227 NEF interaction site [polypeptide binding]; other site 572479002228 SBD interface [polypeptide binding]; other site 572479002229 chaperone protein DnaJ; Provisional; Region: PRK10767 572479002230 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 572479002231 HSP70 interaction site [polypeptide binding]; other site 572479002232 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 572479002233 substrate binding site [polypeptide binding]; other site 572479002234 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 572479002235 Zn binding sites [ion binding]; other site 572479002236 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 572479002237 dimer interface [polypeptide binding]; other site 572479002238 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 572479002239 RNA methyltransferase, RsmE family; Region: TIGR00046 572479002240 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 572479002241 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572479002242 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 572479002243 FeS/SAM binding site; other site 572479002244 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 572479002245 nucleotide binding site/active site [active] 572479002246 HIT family signature motif; other site 572479002247 catalytic residue [active] 572479002248 Yqey-like protein; Region: YqeY; pfam09424 572479002249 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 572479002250 dimer interface [polypeptide binding]; other site 572479002251 active site residues [active] 572479002252 hypothetical protein; Provisional; Region: PRK13665 572479002253 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 572479002254 PhoH-like protein; Region: PhoH; pfam02562 572479002255 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 572479002256 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 572479002257 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479002258 Zn2+ binding site [ion binding]; other site 572479002259 Mg2+ binding site [ion binding]; other site 572479002260 metal-binding heat shock protein; Provisional; Region: PRK00016 572479002261 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 572479002262 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 572479002263 active site 572479002264 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 572479002265 Domain of unknown function DUF21; Region: DUF21; pfam01595 572479002266 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 572479002267 Transporter associated domain; Region: CorC_HlyC; smart01091 572479002268 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 572479002269 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 572479002270 active site 572479002271 catalytic motif [active] 572479002272 Zn binding site [ion binding]; other site 572479002273 GTPase Era; Reviewed; Region: era; PRK00089 572479002274 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 572479002275 G1 box; other site 572479002276 GTP/Mg2+ binding site [chemical binding]; other site 572479002277 Switch I region; other site 572479002278 G2 box; other site 572479002279 Switch II region; other site 572479002280 G3 box; other site 572479002281 G4 box; other site 572479002282 G5 box; other site 572479002283 KH domain; Region: KH_2; pfam07650 572479002284 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 572479002285 MgtE intracellular N domain; Region: MgtE_N; pfam03448 572479002286 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 572479002287 Divalent cation transporter; Region: MgtE; pfam01769 572479002288 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 572479002289 intersubunit interface [polypeptide binding]; other site 572479002290 active site 572479002291 catalytic residue [active] 572479002292 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 572479002293 Recombination protein O N terminal; Region: RecO_N; pfam11967 572479002294 Recombination protein O C terminal; Region: RecO_C; pfam02565 572479002295 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 572479002296 motif 1; other site 572479002297 dimer interface [polypeptide binding]; other site 572479002298 active site 572479002299 motif 2; other site 572479002300 motif 3; other site 572479002301 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 572479002302 DALR anticodon binding domain; Region: DALR_1; pfam05746 572479002303 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 572479002304 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 572479002305 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479002306 Zn2+ binding site [ion binding]; other site 572479002307 Mg2+ binding site [ion binding]; other site 572479002308 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 572479002309 DNA primase; Validated; Region: dnaG; PRK05667 572479002310 CHC2 zinc finger; Region: zf-CHC2; pfam01807 572479002311 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 572479002312 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 572479002313 active site 572479002314 metal binding site [ion binding]; metal-binding site 572479002315 interdomain interaction site; other site 572479002316 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 572479002317 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 572479002318 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 572479002319 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 572479002320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572479002321 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 572479002322 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 572479002323 DNA binding residues [nucleotide binding] 572479002324 Uncharacterized conserved protein [Function unknown]; Region: COG0327 572479002325 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 572479002326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 572479002327 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 572479002328 Uncharacterized conserved protein [Function unknown]; Region: COG0327 572479002329 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 572479002330 non-specific DNA binding site [nucleotide binding]; other site 572479002331 salt bridge; other site 572479002332 sequence-specific DNA binding site [nucleotide binding]; other site 572479002333 hypothetical protein; Validated; Region: PRK00110 572479002334 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 572479002335 active site 572479002336 putative DNA-binding cleft [nucleotide binding]; other site 572479002337 dimer interface [polypeptide binding]; other site 572479002338 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 572479002339 RuvA N terminal domain; Region: RuvA_N; pfam01330 572479002340 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 572479002341 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 572479002342 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 572479002343 Walker A motif; other site 572479002344 ATP binding site [chemical binding]; other site 572479002345 Walker B motif; other site 572479002346 arginine finger; other site 572479002347 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 572479002348 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 572479002349 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 572479002350 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 572479002351 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 572479002352 Preprotein translocase subunit; Region: YajC; cl00806 572479002353 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 572479002354 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 572479002355 Catalytic site [active] 572479002356 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 572479002357 protein-export membrane protein SecD; Region: secD; TIGR01129 572479002358 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 572479002359 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 572479002360 Protein export membrane protein; Region: SecD_SecF; pfam02355 572479002361 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 572479002362 ABC1 family; Region: ABC1; cl17513 572479002363 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 572479002364 active site 572479002365 ATP binding site [chemical binding]; other site 572479002366 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 572479002367 DHH family; Region: DHH; pfam01368 572479002368 DHHA1 domain; Region: DHHA1; pfam02272 572479002369 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479002370 active site 572479002371 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 572479002372 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479002373 Zn2+ binding site [ion binding]; other site 572479002374 Mg2+ binding site [ion binding]; other site 572479002375 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 572479002376 synthetase active site [active] 572479002377 NTP binding site [chemical binding]; other site 572479002378 metal binding site [ion binding]; metal-binding site 572479002379 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 572479002380 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 572479002381 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 572479002382 putative active site [active] 572479002383 dimerization interface [polypeptide binding]; other site 572479002384 putative tRNAtyr binding site [nucleotide binding]; other site 572479002385 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572479002386 SurA N-terminal domain; Region: SurA_N_3; cl07813 572479002387 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 572479002388 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572479002389 TPR motif; other site 572479002390 binding surface 572479002391 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 572479002392 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 572479002393 dimer interface [polypeptide binding]; other site 572479002394 motif 1; other site 572479002395 active site 572479002396 motif 2; other site 572479002397 motif 3; other site 572479002398 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 572479002399 anticodon binding site; other site 572479002400 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 572479002401 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 572479002402 dimer interface [polypeptide binding]; other site 572479002403 anticodon binding site; other site 572479002404 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 572479002405 homodimer interface [polypeptide binding]; other site 572479002406 motif 1; other site 572479002407 active site 572479002408 motif 2; other site 572479002409 GAD domain; Region: GAD; pfam02938 572479002410 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 572479002411 motif 3; other site 572479002412 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 572479002413 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 572479002414 recombination factor protein RarA; Reviewed; Region: PRK13342 572479002415 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 572479002416 Walker A motif; other site 572479002417 ATP binding site [chemical binding]; other site 572479002418 Walker B motif; other site 572479002419 arginine finger; other site 572479002420 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 572479002421 Uncharacterized conserved protein [Function unknown]; Region: COG1739 572479002422 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 572479002423 Predicted transcriptional regulator [Transcription]; Region: COG1959 572479002424 Transcriptional regulator; Region: Rrf2; cl17282 572479002425 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 572479002426 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 572479002427 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572479002428 catalytic residue [active] 572479002429 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 572479002430 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 572479002431 Ligand Binding Site [chemical binding]; other site 572479002432 Predicted dehydrogenase [General function prediction only]; Region: COG0579 572479002433 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572479002434 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572479002435 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479002436 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572479002437 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 572479002438 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 572479002439 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 572479002440 dimerization domain swap beta strand [polypeptide binding]; other site 572479002441 regulatory protein interface [polypeptide binding]; other site 572479002442 active site 572479002443 regulatory phosphorylation site [posttranslational modification]; other site 572479002444 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 572479002445 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 572479002446 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 572479002447 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 572479002448 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 572479002449 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 572479002450 RNA/DNA hybrid binding site [nucleotide binding]; other site 572479002451 active site 572479002452 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572479002453 metal binding site 2 [ion binding]; metal-binding site 572479002454 putative DNA binding helix; other site 572479002455 metal binding site 1 [ion binding]; metal-binding site 572479002456 dimer interface [polypeptide binding]; other site 572479002457 structural Zn2+ binding site [ion binding]; other site 572479002458 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 572479002459 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 572479002460 active site 572479002461 HIGH motif; other site 572479002462 dimer interface [polypeptide binding]; other site 572479002463 KMSKS motif; other site 572479002464 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 572479002465 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 572479002466 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572479002467 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 572479002468 active site 572479002469 DNA polymerase IV; Validated; Region: PRK02406 572479002470 DNA binding site [nucleotide binding] 572479002471 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 572479002472 cell division protein MraZ; Reviewed; Region: PRK00326 572479002473 MraZ protein; Region: MraZ; pfam02381 572479002474 MraZ protein; Region: MraZ; pfam02381 572479002475 MraW methylase family; Region: Methyltransf_5; pfam01795 572479002476 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 572479002477 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 572479002478 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 572479002479 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 572479002480 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 572479002481 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 572479002482 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 572479002483 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 572479002484 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572479002485 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572479002486 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 572479002487 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 572479002488 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572479002489 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572479002490 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 572479002491 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 572479002492 Mg++ binding site [ion binding]; other site 572479002493 putative catalytic motif [active] 572479002494 putative substrate binding site [chemical binding]; other site 572479002495 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 572479002496 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572479002497 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572479002498 cell division protein FtsW; Region: ftsW; TIGR02614 572479002499 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 572479002500 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 572479002501 active site 572479002502 homodimer interface [polypeptide binding]; other site 572479002503 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 572479002504 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 572479002505 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572479002506 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572479002507 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 572479002508 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 572479002509 Cell division protein FtsA; Region: FtsA; smart00842 572479002510 Cell division protein FtsA; Region: FtsA; pfam14450 572479002511 cell division protein FtsZ; Validated; Region: PRK09330 572479002512 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 572479002513 nucleotide binding site [chemical binding]; other site 572479002514 SulA interaction site; other site 572479002515 HlyD family secretion protein; Region: HlyD_2; pfam12700 572479002516 putative membrane fusion protein; Region: TIGR02828 572479002517 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 572479002518 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572479002519 catalytic residue [active] 572479002520 YGGT family; Region: YGGT; pfam02325 572479002521 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 572479002522 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 572479002523 RNA binding surface [nucleotide binding]; other site 572479002524 DivIVA protein; Region: DivIVA; pfam05103 572479002525 DivIVA domain; Region: DivI1A_domain; TIGR03544 572479002526 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 572479002527 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 572479002528 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 572479002529 HIGH motif; other site 572479002530 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 572479002531 active site 572479002532 KMSKS motif; other site 572479002533 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 572479002534 tRNA binding surface [nucleotide binding]; other site 572479002535 anticodon binding site; other site 572479002536 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 572479002537 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572479002538 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 572479002539 lipoprotein signal peptidase; Provisional; Region: PRK14787 572479002540 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 572479002541 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572479002542 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 572479002543 RNA binding surface [nucleotide binding]; other site 572479002544 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 572479002545 active site 572479002546 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 572479002547 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572479002548 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572479002549 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 572479002550 elongation factor G; Reviewed; Region: PRK12740 572479002551 G1 box; other site 572479002552 putative GEF interaction site [polypeptide binding]; other site 572479002553 GTP/Mg2+ binding site [chemical binding]; other site 572479002554 Switch I region; other site 572479002555 G2 box; other site 572479002556 G3 box; other site 572479002557 Switch II region; other site 572479002558 G4 box; other site 572479002559 G5 box; other site 572479002560 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 572479002561 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 572479002562 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 572479002563 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 572479002564 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 572479002565 catalytic triad [active] 572479002566 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 572479002567 Domain of unknown function (DUF814); Region: DUF814; pfam05670 572479002568 hypothetical protein; Provisional; Region: PRK04323 572479002569 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 572479002570 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 572479002571 catalytic site [active] 572479002572 G-X2-G-X-G-K; other site 572479002573 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 572479002574 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 572479002575 Flavoprotein; Region: Flavoprotein; pfam02441 572479002576 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 572479002577 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 572479002578 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 572479002579 peptide binding site [polypeptide binding]; other site 572479002580 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572479002581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479002582 dimer interface [polypeptide binding]; other site 572479002583 conserved gate region; other site 572479002584 putative PBP binding loops; other site 572479002585 ABC-ATPase subunit interface; other site 572479002586 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 572479002587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479002588 dimer interface [polypeptide binding]; other site 572479002589 conserved gate region; other site 572479002590 putative PBP binding loops; other site 572479002591 ABC-ATPase subunit interface; other site 572479002592 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 572479002593 S-adenosylmethionine synthetase; Validated; Region: PRK05250 572479002594 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 572479002595 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 572479002596 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 572479002597 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 572479002598 helicase superfamily c-terminal domain; Region: HELICc; smart00490 572479002599 nucleotide binding region [chemical binding]; other site 572479002600 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 572479002601 active site 572479002602 catalytic residues [active] 572479002603 metal binding site [ion binding]; metal-binding site 572479002604 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 572479002605 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 572479002606 putative active site [active] 572479002607 substrate binding site [chemical binding]; other site 572479002608 putative cosubstrate binding site; other site 572479002609 catalytic site [active] 572479002610 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 572479002611 substrate binding site [chemical binding]; other site 572479002612 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 572479002613 16S rRNA methyltransferase B; Provisional; Region: PRK14902 572479002614 NusB family; Region: NusB; pfam01029 572479002615 putative RNA binding site [nucleotide binding]; other site 572479002616 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 572479002617 S-adenosylmethionine binding site [chemical binding]; other site 572479002618 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 572479002619 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 572479002620 FeS/SAM binding site; other site 572479002621 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 572479002622 active site 572479002623 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 572479002624 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 572479002625 active site 572479002626 ATP binding site [chemical binding]; other site 572479002627 substrate binding site [chemical binding]; other site 572479002628 activation loop (A-loop); other site 572479002629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 572479002630 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 572479002631 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 572479002632 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 572479002633 GTPase RsgA; Reviewed; Region: PRK00098 572479002634 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 572479002635 RNA binding site [nucleotide binding]; other site 572479002636 homodimer interface [polypeptide binding]; other site 572479002637 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 572479002638 GTPase/Zn-binding domain interface [polypeptide binding]; other site 572479002639 GTP/Mg2+ binding site [chemical binding]; other site 572479002640 G4 box; other site 572479002641 G5 box; other site 572479002642 G1 box; other site 572479002643 Switch I region; other site 572479002644 G2 box; other site 572479002645 G3 box; other site 572479002646 Switch II region; other site 572479002647 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 572479002648 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 572479002649 substrate binding site [chemical binding]; other site 572479002650 hexamer interface [polypeptide binding]; other site 572479002651 metal binding site [ion binding]; metal-binding site 572479002652 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 572479002653 Thiamine pyrophosphokinase; Region: TPK; cd07995 572479002654 active site 572479002655 dimerization interface [polypeptide binding]; other site 572479002656 thiamine binding site [chemical binding]; other site 572479002657 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 572479002658 Malic enzyme, N-terminal domain; Region: malic; pfam00390 572479002659 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 572479002660 putative NAD(P) binding site [chemical binding]; other site 572479002661 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 572479002662 Asp23 family; Region: Asp23; pfam03780 572479002663 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 572479002664 DAK2 domain; Region: Dak2; pfam02734 572479002665 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 572479002666 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 572479002667 ssDNA binding site; other site 572479002668 generic binding surface II; other site 572479002669 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 572479002670 ATP binding site [chemical binding]; other site 572479002671 putative Mg++ binding site [ion binding]; other site 572479002672 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 572479002673 nucleotide binding region [chemical binding]; other site 572479002674 ATP-binding site [chemical binding]; other site 572479002675 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 572479002676 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 572479002677 S-adenosylmethionine binding site [chemical binding]; other site 572479002678 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 572479002679 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 572479002680 active site 572479002681 (T/H)XGH motif; other site 572479002682 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 572479002683 UbiA prenyltransferase family; Region: UbiA; pfam01040 572479002684 hypothetical protein; Provisional; Region: PRK11770 572479002685 Domain of unknown function (DUF307); Region: DUF307; pfam03733 572479002686 Domain of unknown function (DUF307); Region: DUF307; pfam03733 572479002687 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 572479002688 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 572479002689 active site 572479002690 nucleophile elbow; other site 572479002691 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 572479002692 Ligand Binding Site [chemical binding]; other site 572479002693 PAS domain S-box; Region: sensory_box; TIGR00229 572479002694 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 572479002695 putative active site [active] 572479002696 heme pocket [chemical binding]; other site 572479002697 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 572479002698 PAS domain; Region: PAS_9; pfam13426 572479002699 putative active site [active] 572479002700 heme pocket [chemical binding]; other site 572479002701 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479002702 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479002703 metal binding site [ion binding]; metal-binding site 572479002704 active site 572479002705 I-site; other site 572479002706 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 572479002707 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 572479002708 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 572479002709 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 572479002710 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 572479002711 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 572479002712 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 572479002713 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1323 572479002714 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 572479002715 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 572479002716 propionate/acetate kinase; Provisional; Region: PRK12379 572479002717 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 572479002718 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 572479002719 putative phosphate acyltransferase; Provisional; Region: PRK05331 572479002720 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 572479002721 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 572479002722 FMN binding site [chemical binding]; other site 572479002723 substrate binding site [chemical binding]; other site 572479002724 putative catalytic residue [active] 572479002725 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 572479002726 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 572479002727 NAD(P) binding site [chemical binding]; other site 572479002728 homotetramer interface [polypeptide binding]; other site 572479002729 homodimer interface [polypeptide binding]; other site 572479002730 active site 572479002731 acyl carrier protein; Provisional; Region: acpP; PRK00982 572479002732 ribonuclease III; Reviewed; Region: rnc; PRK00102 572479002733 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 572479002734 dimerization interface [polypeptide binding]; other site 572479002735 active site 572479002736 metal binding site [ion binding]; metal-binding site 572479002737 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 572479002738 dsRNA binding site [nucleotide binding]; other site 572479002739 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 572479002740 homotrimer interaction site [polypeptide binding]; other site 572479002741 active site 572479002742 cytidylate kinase; Provisional; Region: cmk; PRK00023 572479002743 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 572479002744 CMP-binding site; other site 572479002745 The sites determining sugar specificity; other site 572479002746 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572479002747 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 572479002748 putative acyl-acceptor binding pocket; other site 572479002749 LytB protein; Region: LYTB; cl00507 572479002750 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 572479002751 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 572479002752 RNA binding site [nucleotide binding]; other site 572479002753 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 572479002754 RNA binding site [nucleotide binding]; other site 572479002755 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 572479002756 RNA binding site [nucleotide binding]; other site 572479002757 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 572479002758 RNA binding site [nucleotide binding]; other site 572479002759 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 572479002760 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 572479002761 Protein of unknown function (DUF512); Region: DUF512; pfam04459 572479002762 GTP-binding protein Der; Reviewed; Region: PRK00093 572479002763 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 572479002764 G1 box; other site 572479002765 GTP/Mg2+ binding site [chemical binding]; other site 572479002766 Switch I region; other site 572479002767 G2 box; other site 572479002768 Switch II region; other site 572479002769 G3 box; other site 572479002770 G4 box; other site 572479002771 G5 box; other site 572479002772 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 572479002773 G1 box; other site 572479002774 GTP/Mg2+ binding site [chemical binding]; other site 572479002775 Switch I region; other site 572479002776 G2 box; other site 572479002777 G3 box; other site 572479002778 Switch II region; other site 572479002779 G4 box; other site 572479002780 G5 box; other site 572479002781 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 572479002782 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 572479002783 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 572479002784 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 572479002785 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 572479002786 IHF - DNA interface [nucleotide binding]; other site 572479002787 IHF dimer interface [polypeptide binding]; other site 572479002788 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572479002789 photolyase PhrII; Region: phr2; TIGR00591 572479002790 DNA photolyase; Region: DNA_photolyase; pfam00875 572479002791 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 572479002792 Ferritin-like domain; Region: Ferritin; pfam00210 572479002793 ferroxidase diiron center [ion binding]; other site 572479002794 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 572479002795 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 572479002796 active site 572479002797 putative substrate binding pocket [chemical binding]; other site 572479002798 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 572479002799 Uncharacterized conserved protein [Function unknown]; Region: COG1615 572479002800 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 572479002801 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572479002802 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 572479002803 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 572479002804 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572479002805 sugar efflux transporter; Region: 2A0120; TIGR00899 572479002806 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 572479002807 putative substrate translocation pore; other site 572479002808 epoxyqueuosine reductase; Region: TIGR00276 572479002809 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 572479002810 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 572479002811 active site 572479002812 Uncharacterized conserved protein [Function unknown]; Region: COG5663 572479002813 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 572479002814 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 572479002815 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 572479002816 minor groove reading motif; other site 572479002817 helix-hairpin-helix signature motif; other site 572479002818 substrate binding pocket [chemical binding]; other site 572479002819 active site 572479002820 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 572479002821 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 572479002822 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 572479002823 putative active site [active] 572479002824 PhoH-like protein; Region: PhoH; pfam02562 572479002825 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 572479002826 binding surface 572479002827 TPR repeat; Region: TPR_11; pfam13414 572479002828 TPR motif; other site 572479002829 Stage II sporulation protein; Region: SpoIID; pfam08486 572479002830 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 572479002831 Predicted membrane protein [Function unknown]; Region: COG3601 572479002832 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 572479002833 putative hydrolase; Provisional; Region: PRK02113 572479002834 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 572479002835 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 572479002836 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 572479002837 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572479002838 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 572479002839 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572479002840 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572479002841 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572479002842 Peptidase family M23; Region: Peptidase_M23; pfam01551 572479002843 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 572479002844 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 572479002845 zinc binding site [ion binding]; other site 572479002846 putative ligand binding site [chemical binding]; other site 572479002847 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 572479002848 active site 572479002849 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 572479002850 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 572479002851 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 572479002852 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 572479002853 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 572479002854 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 572479002855 active site 572479002856 dimer interface [polypeptide binding]; other site 572479002857 motif 1; other site 572479002858 motif 2; other site 572479002859 motif 3; other site 572479002860 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 572479002861 anticodon binding site; other site 572479002862 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 572479002863 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 572479002864 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 572479002865 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 572479002866 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 572479002867 23S rRNA binding site [nucleotide binding]; other site 572479002868 L21 binding site [polypeptide binding]; other site 572479002869 L13 binding site [polypeptide binding]; other site 572479002870 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 572479002871 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 572479002872 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 572479002873 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 572479002874 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 572479002875 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 572479002876 dimer interface [polypeptide binding]; other site 572479002877 motif 1; other site 572479002878 active site 572479002879 motif 2; other site 572479002880 motif 3; other site 572479002881 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 572479002882 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 572479002883 putative tRNA-binding site [nucleotide binding]; other site 572479002884 B3/4 domain; Region: B3_4; pfam03483 572479002885 tRNA synthetase B5 domain; Region: B5; smart00874 572479002886 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 572479002887 dimer interface [polypeptide binding]; other site 572479002888 motif 1; other site 572479002889 motif 3; other site 572479002890 motif 2; other site 572479002891 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 572479002892 Cell division protein ZapA; Region: ZapA; pfam05164 572479002893 Colicin V production protein; Region: Colicin_V; pfam02674 572479002894 hypothetical protein; Provisional; Region: PRK08609 572479002895 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 572479002896 active site 572479002897 primer binding site [nucleotide binding]; other site 572479002898 NTP binding site [chemical binding]; other site 572479002899 metal binding triad [ion binding]; metal-binding site 572479002900 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 572479002901 active site 572479002902 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 572479002903 MutS domain III; Region: MutS_III; pfam05192 572479002904 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 572479002905 Walker A/P-loop; other site 572479002906 ATP binding site [chemical binding]; other site 572479002907 Q-loop/lid; other site 572479002908 ABC transporter signature motif; other site 572479002909 Walker B; other site 572479002910 D-loop; other site 572479002911 H-loop/switch region; other site 572479002912 Smr domain; Region: Smr; pfam01713 572479002913 Transglycosylase; Region: Transgly; pfam00912 572479002914 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 572479002915 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 572479002916 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 572479002917 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 572479002918 active site 572479002919 HIGH motif; other site 572479002920 dimer interface [polypeptide binding]; other site 572479002921 KMSKS motif; other site 572479002922 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 572479002923 RNA binding surface [nucleotide binding]; other site 572479002924 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 572479002925 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 572479002926 motif 1; other site 572479002927 active site 572479002928 motif 2; other site 572479002929 motif 3; other site 572479002930 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 572479002931 hypothetical protein; Provisional; Region: PRK05473 572479002932 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 572479002933 YceG-like family; Region: YceG; pfam02618 572479002934 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 572479002935 dimerization interface [polypeptide binding]; other site 572479002936 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 572479002937 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 572479002938 S-adenosylmethionine binding site [chemical binding]; other site 572479002939 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 572479002940 Peptidase family U32; Region: Peptidase_U32; pfam01136 572479002941 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 572479002942 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 572479002943 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 572479002944 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 572479002945 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572479002946 metal binding site 2 [ion binding]; metal-binding site 572479002947 putative DNA binding helix; other site 572479002948 metal binding site 1 [ion binding]; metal-binding site 572479002949 dimer interface [polypeptide binding]; other site 572479002950 structural Zn2+ binding site [ion binding]; other site 572479002951 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572479002952 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 572479002953 ligand binding site [chemical binding]; other site 572479002954 flexible hinge region; other site 572479002955 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 572479002956 non-specific DNA interactions [nucleotide binding]; other site 572479002957 DNA binding site [nucleotide binding] 572479002958 sequence specific DNA binding site [nucleotide binding]; other site 572479002959 putative cAMP binding site [chemical binding]; other site 572479002960 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 572479002961 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 572479002962 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 572479002963 shikimate binding site; other site 572479002964 NAD(P) binding site [chemical binding]; other site 572479002965 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 572479002966 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 572479002967 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 572479002968 Walker A motif; other site 572479002969 ATP binding site [chemical binding]; other site 572479002970 Walker B motif; other site 572479002971 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 572479002972 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 572479002973 Walker A motif; other site 572479002974 ATP binding site [chemical binding]; other site 572479002975 Walker B motif; other site 572479002976 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 572479002977 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572479002978 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572479002979 O-Antigen ligase; Region: Wzy_C; pfam04932 572479002980 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 572479002981 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 572479002982 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 572479002983 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 572479002984 PilX N-terminal; Region: PilX_N; pfam14341 572479002985 Competence protein A; Region: Competence_A; pfam11104 572479002986 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 572479002987 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 572479002988 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 572479002989 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 572479002990 Cache domain; Region: Cache_1; pfam02743 572479002991 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572479002992 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 572479002993 dimer interface [polypeptide binding]; other site 572479002994 phosphorylation site [posttranslational modification] 572479002995 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 572479002996 ATP binding site [chemical binding]; other site 572479002997 Mg2+ binding site [ion binding]; other site 572479002998 G-X-G motif; other site 572479002999 Response regulator receiver domain; Region: Response_reg; pfam00072 572479003000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479003001 active site 572479003002 phosphorylation site [posttranslational modification] 572479003003 intermolecular recognition site; other site 572479003004 dimerization interface [polypeptide binding]; other site 572479003005 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 572479003006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479003007 active site 572479003008 phosphorylation site [posttranslational modification] 572479003009 intermolecular recognition site; other site 572479003010 dimerization interface [polypeptide binding]; other site 572479003011 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 572479003012 putative binding surface; other site 572479003013 active site 572479003014 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 572479003015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479003016 active site 572479003017 phosphorylation site [posttranslational modification] 572479003018 intermolecular recognition site; other site 572479003019 dimerization interface [polypeptide binding]; other site 572479003020 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479003021 Zn2+ binding site [ion binding]; other site 572479003022 Mg2+ binding site [ion binding]; other site 572479003023 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 572479003024 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572479003025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572479003026 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 572479003027 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479003028 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 572479003029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479003030 dimer interface [polypeptide binding]; other site 572479003031 conserved gate region; other site 572479003032 putative PBP binding loops; other site 572479003033 ABC-ATPase subunit interface; other site 572479003034 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479003035 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479003036 dimer interface [polypeptide binding]; other site 572479003037 conserved gate region; other site 572479003038 putative PBP binding loops; other site 572479003039 ABC-ATPase subunit interface; other site 572479003040 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 572479003041 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 572479003042 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 572479003043 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 572479003044 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 572479003045 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 572479003046 phosphate binding site [ion binding]; other site 572479003047 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 572479003048 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 572479003049 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 572479003050 L-aspartate oxidase; Provisional; Region: PRK06175 572479003051 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 572479003052 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 572479003053 active site 572479003054 intersubunit interface [polypeptide binding]; other site 572479003055 catalytic residue [active] 572479003056 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 572479003057 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 572479003058 substrate binding site [chemical binding]; other site 572479003059 ATP binding site [chemical binding]; other site 572479003060 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 572479003061 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 572479003062 Walker A motif; other site 572479003063 ATP binding site [chemical binding]; other site 572479003064 Walker B motif; other site 572479003065 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572479003066 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572479003067 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 572479003068 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 572479003069 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 572479003070 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 572479003071 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 572479003072 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 572479003073 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 572479003074 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 572479003075 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 572479003076 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 572479003077 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 572479003078 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 572479003079 ADP binding site [chemical binding]; other site 572479003080 magnesium binding site [ion binding]; other site 572479003081 putative shikimate binding site; other site 572479003082 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 572479003083 active site 572479003084 dimer interface [polypeptide binding]; other site 572479003085 metal binding site [ion binding]; metal-binding site 572479003086 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 572479003087 Dehydroquinase class II; Region: DHquinase_II; pfam01220 572479003088 trimer interface [polypeptide binding]; other site 572479003089 active site 572479003090 dimer interface [polypeptide binding]; other site 572479003091 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 572479003092 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 572479003093 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 572479003094 active site 572479003095 elongation factor P; Validated; Region: PRK00529 572479003096 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 572479003097 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 572479003098 RNA binding site [nucleotide binding]; other site 572479003099 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 572479003100 RNA binding site [nucleotide binding]; other site 572479003101 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572479003102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479003103 Asp23 family; Region: Asp23; pfam03780 572479003104 Asp23 family; Region: Asp23; cl00574 572479003105 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 572479003106 putative RNA binding site [nucleotide binding]; other site 572479003107 aspartate aminotransferase; Provisional; Region: PRK05764 572479003108 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 572479003109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479003110 homodimer interface [polypeptide binding]; other site 572479003111 catalytic residue [active] 572479003112 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 572479003113 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 572479003114 FAD binding pocket [chemical binding]; other site 572479003115 FAD binding motif [chemical binding]; other site 572479003116 phosphate binding motif [ion binding]; other site 572479003117 beta-alpha-beta structure motif; other site 572479003118 NAD binding pocket [chemical binding]; other site 572479003119 Iron coordination center [ion binding]; other site 572479003120 putative oxidoreductase; Provisional; Region: PRK12831 572479003121 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479003122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479003123 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 572479003124 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 572479003125 generic binding surface II; other site 572479003126 generic binding surface I; other site 572479003127 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 572479003128 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 572479003129 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 572479003130 substrate binding pocket [chemical binding]; other site 572479003131 chain length determination region; other site 572479003132 substrate-Mg2+ binding site; other site 572479003133 catalytic residues [active] 572479003134 aspartate-rich region 1; other site 572479003135 active site lid residues [active] 572479003136 aspartate-rich region 2; other site 572479003137 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 572479003138 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 572479003139 TPP-binding site; other site 572479003140 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 572479003141 PYR/PP interface [polypeptide binding]; other site 572479003142 dimer interface [polypeptide binding]; other site 572479003143 TPP binding site [chemical binding]; other site 572479003144 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572479003145 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 572479003146 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 572479003147 RNA binding surface [nucleotide binding]; other site 572479003148 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 572479003149 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 572479003150 ATP-NAD kinase; Region: NAD_kinase; pfam01513 572479003151 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 572479003152 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 572479003153 Walker A/P-loop; other site 572479003154 ATP binding site [chemical binding]; other site 572479003155 Q-loop/lid; other site 572479003156 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 572479003157 ABC transporter signature motif; other site 572479003158 Walker B; other site 572479003159 D-loop; other site 572479003160 H-loop/switch region; other site 572479003161 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 572479003162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479003163 active site 572479003164 phosphorylation site [posttranslational modification] 572479003165 intermolecular recognition site; other site 572479003166 dimerization interface [polypeptide binding]; other site 572479003167 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 572479003168 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 572479003169 dimer interface [polypeptide binding]; other site 572479003170 ADP-ribose binding site [chemical binding]; other site 572479003171 active site 572479003172 nudix motif; other site 572479003173 metal binding site [ion binding]; metal-binding site 572479003174 TIGR00375 family protein; Region: TIGR00375 572479003175 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 572479003176 active site 572479003177 PHP-associated; Region: PHP_C; pfam13263 572479003178 IMS family HHH motif; Region: IMS_HHH; pfam11798 572479003179 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 572479003180 DNA binding site [nucleotide binding] 572479003181 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 572479003182 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 572479003183 purine nucleoside phosphorylase; Provisional; Region: PRK08202 572479003184 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 572479003185 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 572479003186 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 572479003187 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 572479003188 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 572479003189 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 572479003190 active site 572479003191 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 572479003192 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 572479003193 active site 572479003194 NTP binding site [chemical binding]; other site 572479003195 metal binding triad [ion binding]; metal-binding site 572479003196 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 572479003197 Peptidase family M50; Region: Peptidase_M50; pfam02163 572479003198 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 572479003199 active site 572479003200 putative substrate binding region [chemical binding]; other site 572479003201 ScpA/B protein; Region: ScpA_ScpB; cl00598 572479003202 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 572479003203 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 572479003204 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 572479003205 RNA binding surface [nucleotide binding]; other site 572479003206 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 572479003207 active site 572479003208 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 572479003209 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 572479003210 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 572479003211 Walker A/P-loop; other site 572479003212 ATP binding site [chemical binding]; other site 572479003213 Q-loop/lid; other site 572479003214 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 572479003215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479003216 Walker B; other site 572479003217 D-loop; other site 572479003218 H-loop/switch region; other site 572479003219 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 572479003220 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 572479003221 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 572479003222 P loop; other site 572479003223 GTP binding site [chemical binding]; other site 572479003224 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 572479003225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572479003226 Coenzyme A binding pocket [chemical binding]; other site 572479003227 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 572479003228 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 572479003229 DNA binding residues [nucleotide binding] 572479003230 signal recognition particle protein; Provisional; Region: PRK10867 572479003231 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 572479003232 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 572479003233 P loop; other site 572479003234 GTP binding site [chemical binding]; other site 572479003235 Signal peptide binding domain; Region: SRP_SPB; pfam02978 572479003236 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 572479003237 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 572479003238 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 572479003239 G-X-X-G motif; other site 572479003240 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 572479003241 RimM N-terminal domain; Region: RimM; pfam01782 572479003242 PRC-barrel domain; Region: PRC; pfam05239 572479003243 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 572479003244 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 572479003245 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 572479003246 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 572479003247 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 572479003248 GTP/Mg2+ binding site [chemical binding]; other site 572479003249 G4 box; other site 572479003250 G5 box; other site 572479003251 G1 box; other site 572479003252 Switch I region; other site 572479003253 G2 box; other site 572479003254 G3 box; other site 572479003255 Switch II region; other site 572479003256 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 572479003257 RNA/DNA hybrid binding site [nucleotide binding]; other site 572479003258 active site 572479003259 QueT transporter; Region: QueT; pfam06177 572479003260 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 572479003261 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 572479003262 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 572479003263 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 572479003264 hypothetical protein; Reviewed; Region: PRK12497 572479003265 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 572479003266 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 572479003267 N-terminal plug; other site 572479003268 ligand-binding site [chemical binding]; other site 572479003269 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 572479003270 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 572479003271 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 572479003272 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 572479003273 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 572479003274 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572479003275 TrkA-N domain; Region: TrkA_N; pfam02254 572479003276 TrkA-C domain; Region: TrkA_C; pfam02080 572479003277 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 572479003278 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 572479003279 DNA protecting protein DprA; Region: dprA; TIGR00732 572479003280 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 572479003281 Protein of unknown function (DUF494); Region: DUF494; cl01103 572479003282 DNA topoisomerase I; Validated; Region: PRK05582 572479003283 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 572479003284 active site 572479003285 interdomain interaction site; other site 572479003286 putative metal-binding site [ion binding]; other site 572479003287 nucleotide binding site [chemical binding]; other site 572479003288 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 572479003289 domain I; other site 572479003290 DNA binding groove [nucleotide binding] 572479003291 phosphate binding site [ion binding]; other site 572479003292 domain II; other site 572479003293 domain III; other site 572479003294 nucleotide binding site [chemical binding]; other site 572479003295 catalytic site [active] 572479003296 domain IV; other site 572479003297 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 572479003298 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 572479003299 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 572479003300 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 572479003301 active site 572479003302 HslU subunit interaction site [polypeptide binding]; other site 572479003303 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 572479003304 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 572479003305 Walker A motif; other site 572479003306 ATP binding site [chemical binding]; other site 572479003307 Walker B motif; other site 572479003308 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 572479003309 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572479003310 transcriptional repressor CodY; Validated; Region: PRK04158 572479003311 CodY GAF-like domain; Region: CodY; pfam06018 572479003312 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 572479003313 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 572479003314 rRNA interaction site [nucleotide binding]; other site 572479003315 S8 interaction site; other site 572479003316 putative laminin-1 binding site; other site 572479003317 elongation factor Ts; Provisional; Region: tsf; PRK09377 572479003318 UBA/TS-N domain; Region: UBA; pfam00627 572479003319 Elongation factor TS; Region: EF_TS; pfam00889 572479003320 Elongation factor TS; Region: EF_TS; pfam00889 572479003321 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 572479003322 putative nucleotide binding site [chemical binding]; other site 572479003323 uridine monophosphate binding site [chemical binding]; other site 572479003324 homohexameric interface [polypeptide binding]; other site 572479003325 ribosome recycling factor; Reviewed; Region: frr; PRK00083 572479003326 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 572479003327 hinge region; other site 572479003328 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 572479003329 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 572479003330 catalytic residue [active] 572479003331 putative FPP diphosphate binding site; other site 572479003332 putative FPP binding hydrophobic cleft; other site 572479003333 dimer interface [polypeptide binding]; other site 572479003334 putative IPP diphosphate binding site; other site 572479003335 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 572479003336 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 572479003337 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 572479003338 Domain of unknown function DUF20; Region: UPF0118; pfam01594 572479003339 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 572479003340 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 572479003341 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 572479003342 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 572479003343 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 572479003344 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 572479003345 active site 572479003346 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 572479003347 protein binding site [polypeptide binding]; other site 572479003348 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 572479003349 putative substrate binding region [chemical binding]; other site 572479003350 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 572479003351 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 572479003352 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 572479003353 prolyl-tRNA synthetase; Provisional; Region: PRK09194 572479003354 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 572479003355 dimer interface [polypeptide binding]; other site 572479003356 motif 1; other site 572479003357 active site 572479003358 motif 2; other site 572479003359 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 572479003360 putative deacylase active site [active] 572479003361 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 572479003362 active site 572479003363 motif 3; other site 572479003364 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 572479003365 anticodon binding site; other site 572479003366 DNA polymerase III PolC; Validated; Region: polC; PRK00448 572479003367 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 572479003368 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 572479003369 generic binding surface II; other site 572479003370 generic binding surface I; other site 572479003371 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 572479003372 active site 572479003373 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 572479003374 active site 572479003375 catalytic site [active] 572479003376 substrate binding site [chemical binding]; other site 572479003377 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 572479003378 ribosome maturation protein RimP; Reviewed; Region: PRK00092 572479003379 Sm and related proteins; Region: Sm_like; cl00259 572479003380 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 572479003381 putative oligomer interface [polypeptide binding]; other site 572479003382 putative RNA binding site [nucleotide binding]; other site 572479003383 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 572479003384 NusA N-terminal domain; Region: NusA_N; pfam08529 572479003385 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 572479003386 RNA binding site [nucleotide binding]; other site 572479003387 homodimer interface [polypeptide binding]; other site 572479003388 NusA-like KH domain; Region: KH_5; pfam13184 572479003389 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 572479003390 G-X-X-G motif; other site 572479003391 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 572479003392 putative RNA binding cleft [nucleotide binding]; other site 572479003393 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 572479003394 translation initiation factor IF-2; Region: IF-2; TIGR00487 572479003395 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 572479003396 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 572479003397 G1 box; other site 572479003398 putative GEF interaction site [polypeptide binding]; other site 572479003399 GTP/Mg2+ binding site [chemical binding]; other site 572479003400 Switch I region; other site 572479003401 G2 box; other site 572479003402 G3 box; other site 572479003403 Switch II region; other site 572479003404 G4 box; other site 572479003405 G5 box; other site 572479003406 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 572479003407 Translation-initiation factor 2; Region: IF-2; pfam11987 572479003408 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 572479003409 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 572479003410 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 572479003411 DHH family; Region: DHH; pfam01368 572479003412 DHHA1 domain; Region: DHHA1; pfam02272 572479003413 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 572479003414 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 572479003415 RNA binding site [nucleotide binding]; other site 572479003416 active site 572479003417 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 572479003418 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 572479003419 active site 572479003420 Riboflavin kinase; Region: Flavokinase; pfam01687 572479003421 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 572479003422 16S/18S rRNA binding site [nucleotide binding]; other site 572479003423 S13e-L30e interaction site [polypeptide binding]; other site 572479003424 25S rRNA binding site [nucleotide binding]; other site 572479003425 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 572479003426 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 572479003427 RNase E interface [polypeptide binding]; other site 572479003428 trimer interface [polypeptide binding]; other site 572479003429 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 572479003430 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 572479003431 RNase E interface [polypeptide binding]; other site 572479003432 trimer interface [polypeptide binding]; other site 572479003433 active site 572479003434 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 572479003435 putative nucleic acid binding region [nucleotide binding]; other site 572479003436 G-X-X-G motif; other site 572479003437 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 572479003438 RNA binding site [nucleotide binding]; other site 572479003439 domain interface; other site 572479003440 endonuclease IV; Provisional; Region: PRK01060 572479003441 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 572479003442 AP (apurinic/apyrimidinic) site pocket; other site 572479003443 DNA interaction; other site 572479003444 Metal-binding active site; metal-binding site 572479003445 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 572479003446 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 572479003447 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 572479003448 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 572479003449 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 572479003450 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572479003451 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 572479003452 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 572479003453 trimer interface [polypeptide binding]; other site 572479003454 active site 572479003455 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 572479003456 aspartate kinase; Reviewed; Region: PRK06635 572479003457 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 572479003458 putative nucleotide binding site [chemical binding]; other site 572479003459 putative catalytic residues [active] 572479003460 putative Mg ion binding site [ion binding]; other site 572479003461 putative aspartate binding site [chemical binding]; other site 572479003462 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 572479003463 putative allosteric regulatory site; other site 572479003464 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 572479003465 putative allosteric regulatory residue; other site 572479003466 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 572479003467 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 572479003468 putative dimer interface [polypeptide binding]; other site 572479003469 putative anticodon binding site; other site 572479003470 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 572479003471 homodimer interface [polypeptide binding]; other site 572479003472 motif 1; other site 572479003473 motif 2; other site 572479003474 active site 572479003475 motif 3; other site 572479003476 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 572479003477 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 572479003478 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 572479003479 DNA binding site [nucleotide binding] 572479003480 active site 572479003481 oligoendopeptidase F; Region: pepF; TIGR00181 572479003482 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 572479003483 active site 572479003484 Zn binding site [ion binding]; other site 572479003485 Esterase/lipase [General function prediction only]; Region: COG1647 572479003486 dipeptidase PepV; Reviewed; Region: PRK07318 572479003487 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 572479003488 active site 572479003489 metal binding site [ion binding]; metal-binding site 572479003490 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 572479003491 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 572479003492 active site 572479003493 metal binding site [ion binding]; metal-binding site 572479003494 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 572479003495 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 572479003496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479003497 homodimer interface [polypeptide binding]; other site 572479003498 catalytic residue [active] 572479003499 flavoprotein, HI0933 family; Region: TIGR00275 572479003500 Protein of unknown function (DUF964); Region: DUF964; pfam06133 572479003501 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 572479003502 GSH binding site [chemical binding]; other site 572479003503 catalytic residues [active] 572479003504 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 572479003505 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479003506 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479003507 Acylphosphatase; Region: Acylphosphatase; pfam00708 572479003508 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 572479003509 Isochorismatase family; Region: Isochorismatase; pfam00857 572479003510 catalytic triad [active] 572479003511 metal binding site [ion binding]; metal-binding site 572479003512 conserved cis-peptide bond; other site 572479003513 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 572479003514 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 572479003515 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 572479003516 EamA-like transporter family; Region: EamA; pfam00892 572479003517 EamA-like transporter family; Region: EamA; pfam00892 572479003518 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 572479003519 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 572479003520 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 572479003521 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572479003522 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 572479003523 Bacitracin resistance protein BacA; Region: BacA; pfam02673 572479003524 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 572479003525 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 572479003526 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 572479003527 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 572479003528 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572479003529 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572479003530 DNA-binding site [nucleotide binding]; DNA binding site 572479003531 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 572479003532 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 572479003533 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 572479003534 ligand binding site [chemical binding]; other site 572479003535 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 572479003536 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 572479003537 Walker A/P-loop; other site 572479003538 ATP binding site [chemical binding]; other site 572479003539 Q-loop/lid; other site 572479003540 ABC transporter signature motif; other site 572479003541 Walker B; other site 572479003542 D-loop; other site 572479003543 H-loop/switch region; other site 572479003544 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 572479003545 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572479003546 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 572479003547 TM-ABC transporter signature motif; other site 572479003548 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572479003549 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 572479003550 TM-ABC transporter signature motif; other site 572479003551 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 572479003552 Helix-turn-helix domain; Region: HTH_25; pfam13413 572479003553 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 572479003554 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 572479003555 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 572479003556 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 572479003557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479003558 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479003559 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572479003560 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 572479003561 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 572479003562 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572479003563 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 572479003564 FeS/SAM binding site; other site 572479003565 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 572479003566 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 572479003567 tetramer interfaces [polypeptide binding]; other site 572479003568 binuclear metal-binding site [ion binding]; other site 572479003569 competence damage-inducible protein A; Provisional; Region: PRK00549 572479003570 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 572479003571 putative MPT binding site; other site 572479003572 Competence-damaged protein; Region: CinA; pfam02464 572479003573 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 572479003574 binding surface 572479003575 TPR motif; other site 572479003576 TPR repeat; Region: TPR_11; pfam13414 572479003577 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 572479003578 binding surface 572479003579 TPR motif; other site 572479003580 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 572479003581 TPR repeat; Region: TPR_11; pfam13414 572479003582 binding surface 572479003583 TPR motif; other site 572479003584 TPR repeat; Region: TPR_11; pfam13414 572479003585 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 572479003586 binding surface 572479003587 TPR motif; other site 572479003588 recombinase A; Provisional; Region: recA; PRK09354 572479003589 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 572479003590 hexamer interface [polypeptide binding]; other site 572479003591 Walker A motif; other site 572479003592 ATP binding site [chemical binding]; other site 572479003593 Walker B motif; other site 572479003594 recombination regulator RecX; Reviewed; Region: recX; PRK00117 572479003595 phosphodiesterase; Provisional; Region: PRK12704 572479003596 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479003597 Zn2+ binding site [ion binding]; other site 572479003598 Mg2+ binding site [ion binding]; other site 572479003599 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 572479003600 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572479003601 putative active site [active] 572479003602 metal binding site [ion binding]; metal-binding site 572479003603 homodimer binding site [polypeptide binding]; other site 572479003604 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 572479003605 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572479003606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479003607 active site 572479003608 phosphorylation site [posttranslational modification] 572479003609 intermolecular recognition site; other site 572479003610 dimerization interface [polypeptide binding]; other site 572479003611 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 572479003612 DNA binding site [nucleotide binding] 572479003613 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 572479003614 dimerization interface [polypeptide binding]; other site 572479003615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572479003616 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 572479003617 dimer interface [polypeptide binding]; other site 572479003618 phosphorylation site [posttranslational modification] 572479003619 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 572479003620 ATP binding site [chemical binding]; other site 572479003621 Mg2+ binding site [ion binding]; other site 572479003622 G-X-G motif; other site 572479003623 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 572479003624 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 572479003625 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 572479003626 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 572479003627 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 572479003628 S-layer homology domain; Region: SLH; pfam00395 572479003629 Haemolysin XhlA; Region: XhlA; pfam10779 572479003630 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 572479003631 DNA gyrase subunit A; Validated; Region: PRK05560 572479003632 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 572479003633 CAP-like domain; other site 572479003634 active site 572479003635 primary dimer interface [polypeptide binding]; other site 572479003636 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572479003637 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 572479003638 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 572479003639 Mg2+ binding site [ion binding]; other site 572479003640 G-X-G motif; other site 572479003641 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 572479003642 anchoring element; other site 572479003643 dimer interface [polypeptide binding]; other site 572479003644 ATP binding site [chemical binding]; other site 572479003645 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 572479003646 active site 572479003647 putative metal-binding site [ion binding]; other site 572479003648 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 572479003649 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 572479003650 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 572479003651 Cl- selectivity filter; other site 572479003652 Cl- binding residues [ion binding]; other site 572479003653 pore gating glutamate residue; other site 572479003654 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 572479003655 dimer interface [polypeptide binding]; other site 572479003656 Rubredoxin [Energy production and conversion]; Region: COG1773 572479003657 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 572479003658 iron binding site [ion binding]; other site 572479003659 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 572479003660 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572479003661 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 572479003662 FeS/SAM binding site; other site 572479003663 TRAM domain; Region: TRAM; pfam01938 572479003664 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 572479003665 MutS domain I; Region: MutS_I; pfam01624 572479003666 MutS domain II; Region: MutS_II; pfam05188 572479003667 MutS domain III; Region: MutS_III; pfam05192 572479003668 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 572479003669 Walker A/P-loop; other site 572479003670 ATP binding site [chemical binding]; other site 572479003671 Q-loop/lid; other site 572479003672 ABC transporter signature motif; other site 572479003673 Walker B; other site 572479003674 D-loop; other site 572479003675 H-loop/switch region; other site 572479003676 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 572479003677 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 572479003678 ATP binding site [chemical binding]; other site 572479003679 Mg2+ binding site [ion binding]; other site 572479003680 G-X-G motif; other site 572479003681 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 572479003682 ATP binding site [chemical binding]; other site 572479003683 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 572479003684 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 572479003685 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 572479003686 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 572479003687 catalytic residues [active] 572479003688 bacterial Hfq-like; Region: Hfq; cd01716 572479003689 hexamer interface [polypeptide binding]; other site 572479003690 Sm1 motif; other site 572479003691 RNA binding site [nucleotide binding]; other site 572479003692 Sm2 motif; other site 572479003693 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 572479003694 TPR repeat; Region: TPR_11; pfam13414 572479003695 TPR motif; other site 572479003696 binding surface 572479003697 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 572479003698 LexA repressor; Validated; Region: PRK00215 572479003699 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 572479003700 Catalytic site [active] 572479003701 LysM domain; Region: LysM; pfam01476 572479003702 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 572479003703 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 572479003704 catalytic residues [active] 572479003705 catalytic nucleophile [active] 572479003706 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 572479003707 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 572479003708 dimer interface [polypeptide binding]; other site 572479003709 NAD binding site [chemical binding]; other site 572479003710 substrate binding site [chemical binding]; other site 572479003711 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572479003712 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 572479003713 short chain dehydrogenase; Provisional; Region: PRK08226 572479003714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572479003715 NAD(P) binding site [chemical binding]; other site 572479003716 active site 572479003717 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 572479003718 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572479003719 thymidylate synthase; Reviewed; Region: thyA; PRK01827 572479003720 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 572479003721 dimerization interface [polypeptide binding]; other site 572479003722 active site 572479003723 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 572479003724 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 572479003725 folate binding site [chemical binding]; other site 572479003726 NADP+ binding site [chemical binding]; other site 572479003727 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572479003728 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 572479003729 putative active site pocket [active] 572479003730 cleavage site 572479003731 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 572479003732 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 572479003733 active site 572479003734 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572479003735 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 572479003736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572479003737 Coenzyme A binding pocket [chemical binding]; other site 572479003738 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_37; cd04696 572479003739 nudix motif; other site 572479003740 Fic family protein [Function unknown]; Region: COG3177 572479003741 Fic/DOC family; Region: Fic; pfam02661 572479003742 Transposase; Region: HTH_Tnp_1; pfam01527 572479003743 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 572479003744 putative transposase OrfB; Reviewed; Region: PHA02517 572479003745 HTH-like domain; Region: HTH_21; pfam13276 572479003746 Integrase core domain; Region: rve; pfam00665 572479003747 Integrase core domain; Region: rve_3; pfam13683 572479003748 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 572479003749 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 572479003750 putative active site [active] 572479003751 putative NTP binding site [chemical binding]; other site 572479003752 putative nucleic acid binding site [nucleotide binding]; other site 572479003753 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 572479003754 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 572479003755 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 572479003756 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 572479003757 non-specific DNA binding site [nucleotide binding]; other site 572479003758 salt bridge; other site 572479003759 sequence-specific DNA binding site [nucleotide binding]; other site 572479003760 HEPN domain; Region: HEPN; cl00824 572479003761 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 572479003762 putative active site [active] 572479003763 homotetrameric interface [polypeptide binding]; other site 572479003764 metal binding site [ion binding]; metal-binding site 572479003765 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 572479003766 S-adenosylmethionine binding site [chemical binding]; other site 572479003767 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 572479003768 Fic family protein [Function unknown]; Region: COG3177 572479003769 Fic/DOC family; Region: Fic; pfam02661 572479003770 Restriction endonuclease; Region: Mrr_cat; pfam04471 572479003771 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 572479003772 putative transposase OrfB; Reviewed; Region: PHA02517 572479003773 HTH-like domain; Region: HTH_21; pfam13276 572479003774 Integrase core domain; Region: rve; pfam00665 572479003775 Integrase core domain; Region: rve_3; pfam13683 572479003776 Transposase; Region: HTH_Tnp_1; pfam01527 572479003777 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 572479003778 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 572479003779 Clp amino terminal domain; Region: Clp_N; pfam02861 572479003780 Clp amino terminal domain; Region: Clp_N; pfam02861 572479003781 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 572479003782 Walker A motif; other site 572479003783 ATP binding site [chemical binding]; other site 572479003784 Walker B motif; other site 572479003785 arginine finger; other site 572479003786 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 572479003787 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 572479003788 Walker A motif; other site 572479003789 ATP binding site [chemical binding]; other site 572479003790 Walker B motif; other site 572479003791 arginine finger; other site 572479003792 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 572479003793 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 572479003794 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 572479003795 active site 572479003796 DNA binding site [nucleotide binding] 572479003797 Int/Topo IB signature motif; other site 572479003798 acetylornithine aminotransferase; Provisional; Region: PRK02627 572479003799 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 572479003800 inhibitor-cofactor binding pocket; inhibition site 572479003801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479003802 catalytic residue [active] 572479003803 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 572479003804 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 572479003805 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 572479003806 trimer interface [polypeptide binding]; other site 572479003807 active site 572479003808 substrate binding site [chemical binding]; other site 572479003809 CoA binding site [chemical binding]; other site 572479003810 dihydrodipicolinate reductase; Provisional; Region: PRK00048 572479003811 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 572479003812 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 572479003813 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 572479003814 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 572479003815 dimer interface [polypeptide binding]; other site 572479003816 active site 572479003817 catalytic residue [active] 572479003818 glutamate dehydrogenase; Provisional; Region: PRK09414 572479003819 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 572479003820 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 572479003821 NAD(P) binding site [chemical binding]; other site 572479003822 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479003823 dimer interface [polypeptide binding]; other site 572479003824 conserved gate region; other site 572479003825 putative PBP binding loops; other site 572479003826 ABC-ATPase subunit interface; other site 572479003827 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 572479003828 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 572479003829 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 572479003830 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 572479003831 Walker A/P-loop; other site 572479003832 ATP binding site [chemical binding]; other site 572479003833 Q-loop/lid; other site 572479003834 ABC transporter signature motif; other site 572479003835 Walker B; other site 572479003836 D-loop; other site 572479003837 H-loop/switch region; other site 572479003838 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 572479003839 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 572479003840 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 572479003841 ATP binding site [chemical binding]; other site 572479003842 Mg++ binding site [ion binding]; other site 572479003843 motif III; other site 572479003844 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 572479003845 nucleotide binding region [chemical binding]; other site 572479003846 ATP-binding site [chemical binding]; other site 572479003847 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 572479003848 RNA binding site [nucleotide binding]; other site 572479003849 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 572479003850 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572479003851 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 572479003852 putative ADP-binding pocket [chemical binding]; other site 572479003853 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 572479003854 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572479003855 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572479003856 DNA binding site [nucleotide binding] 572479003857 domain linker motif; other site 572479003858 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 572479003859 putative dimerization interface [polypeptide binding]; other site 572479003860 putative ligand binding site [chemical binding]; other site 572479003861 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479003862 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479003863 dimer interface [polypeptide binding]; other site 572479003864 conserved gate region; other site 572479003865 putative PBP binding loops; other site 572479003866 ABC-ATPase subunit interface; other site 572479003867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479003868 dimer interface [polypeptide binding]; other site 572479003869 conserved gate region; other site 572479003870 putative PBP binding loops; other site 572479003871 ABC-ATPase subunit interface; other site 572479003872 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 572479003873 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479003874 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 572479003875 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 572479003876 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 572479003877 trimer interface [polypeptide binding]; other site 572479003878 active site 572479003879 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 572479003880 catalytic site [active] 572479003881 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 572479003882 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 572479003883 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 572479003884 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479003885 active site 572479003886 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 572479003887 MgtE intracellular N domain; Region: MgtE_N; pfam03448 572479003888 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 572479003889 Divalent cation transporter; Region: MgtE; pfam01769 572479003890 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572479003891 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 572479003892 ligand binding site [chemical binding]; other site 572479003893 flexible hinge region; other site 572479003894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 572479003895 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 572479003896 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 572479003897 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 572479003898 Uncharacterized conserved protein [Function unknown]; Region: COG4717 572479003899 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 572479003900 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572479003901 active site 572479003902 metal binding site [ion binding]; metal-binding site 572479003903 DNA binding site [nucleotide binding] 572479003904 pyruvate carboxylase; Reviewed; Region: PRK12999 572479003905 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572479003906 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572479003907 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 572479003908 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 572479003909 active site 572479003910 catalytic residues [active] 572479003911 metal binding site [ion binding]; metal-binding site 572479003912 homodimer binding site [polypeptide binding]; other site 572479003913 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 572479003914 carboxyltransferase (CT) interaction site; other site 572479003915 biotinylation site [posttranslational modification]; other site 572479003916 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 572479003917 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 572479003918 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 572479003919 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572479003920 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 572479003921 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 572479003922 DNA binding residues [nucleotide binding] 572479003923 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 572479003924 trimer interface [polypeptide binding]; other site 572479003925 active site 572479003926 G bulge; other site 572479003927 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 572479003928 short chain dehydrogenase; Validated; Region: PRK06182 572479003929 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 572479003930 NADP binding site [chemical binding]; other site 572479003931 active site 572479003932 steroid binding site; other site 572479003933 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 572479003934 synthetase active site [active] 572479003935 NTP binding site [chemical binding]; other site 572479003936 metal binding site [ion binding]; metal-binding site 572479003937 PAS domain S-box; Region: sensory_box; TIGR00229 572479003938 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 572479003939 putative active site [active] 572479003940 heme pocket [chemical binding]; other site 572479003941 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479003942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479003943 metal binding site [ion binding]; metal-binding site 572479003944 active site 572479003945 I-site; other site 572479003946 AAA domain; Region: AAA_23; pfam13476 572479003947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479003948 Walker A/P-loop; other site 572479003949 ATP binding site [chemical binding]; other site 572479003950 Q-loop/lid; other site 572479003951 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 572479003952 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 572479003953 active site 572479003954 metal binding site [ion binding]; metal-binding site 572479003955 CoA binding domain; Region: CoA_binding_2; pfam13380 572479003956 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 572479003957 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_5; cd11352 572479003958 active site 572479003959 catalytic site [active] 572479003960 4Fe-4S binding domain; Region: Fer4; pfam00037 572479003961 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572479003962 4Fe-4S binding domain; Region: Fer4; pfam00037 572479003963 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572479003964 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 572479003965 E3 interaction surface; other site 572479003966 lipoyl attachment site [posttranslational modification]; other site 572479003967 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 572479003968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572479003969 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479003970 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572479003971 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 572479003972 hypothetical protein; Provisional; Region: PRK02399 572479003973 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 572479003974 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 572479003975 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 572479003976 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 572479003977 Walker A motif; other site 572479003978 ATP binding site [chemical binding]; other site 572479003979 Walker B motif; other site 572479003980 arginine finger; other site 572479003981 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 572479003982 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 572479003983 ligand binding site [chemical binding]; other site 572479003984 dimerization interface [polypeptide binding]; other site 572479003985 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572479003986 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 572479003987 TM-ABC transporter signature motif; other site 572479003988 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 572479003989 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 572479003990 Walker A/P-loop; other site 572479003991 ATP binding site [chemical binding]; other site 572479003992 Q-loop/lid; other site 572479003993 ABC transporter signature motif; other site 572479003994 Walker B; other site 572479003995 D-loop; other site 572479003996 H-loop/switch region; other site 572479003997 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 572479003998 D-ribose pyranase; Provisional; Region: PRK11797 572479003999 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 572479004000 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 572479004001 substrate binding site [chemical binding]; other site 572479004002 dimer interface [polypeptide binding]; other site 572479004003 ATP binding site [chemical binding]; other site 572479004004 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572479004005 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572479004006 DNA binding site [nucleotide binding] 572479004007 domain linker motif; other site 572479004008 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 572479004009 dimerization interface [polypeptide binding]; other site 572479004010 ligand binding site [chemical binding]; other site 572479004011 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 572479004012 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 572479004013 putative dimer interface [polypeptide binding]; other site 572479004014 active site pocket [active] 572479004015 putative cataytic base [active] 572479004016 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 572479004017 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 572479004018 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 572479004019 putative transposase OrfB; Reviewed; Region: PHA02517 572479004020 HTH-like domain; Region: HTH_21; pfam13276 572479004021 Integrase core domain; Region: rve; pfam00665 572479004022 Integrase core domain; Region: rve_3; pfam13683 572479004023 Transposase; Region: HTH_Tnp_1; pfam01527 572479004024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 572479004025 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 572479004026 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 572479004027 Domain of unknown function DUF77; Region: DUF77; pfam01910 572479004028 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 572479004029 nudix motif; other site 572479004030 Uncharacterized conserved protein [Function unknown]; Region: COG3339 572479004031 Uncharacterized conserved protein [Function unknown]; Region: COG1683 572479004032 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 572479004033 putative FMN binding site [chemical binding]; other site 572479004034 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572479004035 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 572479004036 TGF-beta propeptide; Region: TGFb_propeptide; pfam00688 572479004037 Bacterial Ig-like domain; Region: Big_5; pfam13205 572479004038 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 572479004039 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 572479004040 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 572479004041 Bacterial Ig-like domain; Region: Big_5; pfam13205 572479004042 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 572479004043 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 572479004044 Leucine-rich repeats; other site 572479004045 Substrate binding site [chemical binding]; other site 572479004046 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 572479004047 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 572479004048 Bacterial Ig-like domain; Region: Big_5; pfam13205 572479004049 Domain of unknown function DUF11; Region: DUF11; cl17728 572479004050 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 572479004051 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 572479004052 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 572479004053 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 572479004054 Phage Tail Collar Domain; Region: Collar; pfam07484 572479004055 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 572479004056 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 572479004057 PLD-like domain; Region: PLDc_2; pfam13091 572479004058 putative active site [active] 572479004059 catalytic site [active] 572479004060 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 572479004061 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 572479004062 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 572479004063 substrate binding site [chemical binding]; other site 572479004064 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 572479004065 Protein of unknown function DUF91; Region: DUF91; cl00709 572479004066 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 572479004067 Transposase; Region: DEDD_Tnp_IS110; pfam01548 572479004068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 572479004069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 572479004070 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 572479004071 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 572479004072 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 572479004073 putative active site [active] 572479004074 putative NTP binding site [chemical binding]; other site 572479004075 putative nucleic acid binding site [nucleotide binding]; other site 572479004076 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 572479004077 HNH endonuclease; Region: HNH_2; pfam13391 572479004078 HTH-like domain; Region: HTH_21; pfam13276 572479004079 Integrase core domain; Region: rve; pfam00665 572479004080 Integrase core domain; Region: rve_3; pfam13683 572479004081 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 572479004082 Transposase; Region: HTH_Tnp_1; pfam01527 572479004083 HNH endonuclease; Region: HNH_2; pfam13391 572479004084 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 572479004085 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 572479004086 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 572479004087 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 572479004088 cofactor binding site; other site 572479004089 DNA binding site [nucleotide binding] 572479004090 substrate interaction site [chemical binding]; other site 572479004091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 572479004092 Transposase; Region: HTH_Tnp_1; pfam01527 572479004093 HsdM N-terminal domain; Region: HsdM_N; pfam12161 572479004094 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 572479004095 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479004096 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479004097 dimer interface [polypeptide binding]; other site 572479004098 putative CheW interface [polypeptide binding]; other site 572479004099 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 572479004100 Predicted amidohydrolase [General function prediction only]; Region: COG0388 572479004101 putative active site [active] 572479004102 catalytic triad [active] 572479004103 putative dimer interface [polypeptide binding]; other site 572479004104 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 572479004105 tetramer interfaces [polypeptide binding]; other site 572479004106 binuclear metal-binding site [ion binding]; other site 572479004107 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 572479004108 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 572479004109 Secretory lipase; Region: LIP; pfam03583 572479004110 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 572479004111 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 572479004112 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 572479004113 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 572479004114 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 572479004115 putative L-serine binding site [chemical binding]; other site 572479004116 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572479004117 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 572479004118 putative active site [active] 572479004119 metal binding site [ion binding]; metal-binding site 572479004120 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572479004121 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572479004122 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 572479004123 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 572479004124 ATP binding site [chemical binding]; other site 572479004125 putative Mg++ binding site [ion binding]; other site 572479004126 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 572479004127 nucleotide binding region [chemical binding]; other site 572479004128 ATP-binding site [chemical binding]; other site 572479004129 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 572479004130 HRDC domain; Region: HRDC; pfam00570 572479004131 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 572479004132 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 572479004133 FeS/SAM binding site; other site 572479004134 Pyruvate formate lyase 1; Region: PFL1; cd01678 572479004135 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 572479004136 coenzyme A binding site [chemical binding]; other site 572479004137 active site 572479004138 catalytic residues [active] 572479004139 glycine loop; other site 572479004140 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 572479004141 Soluble P-type ATPase [General function prediction only]; Region: COG4087 572479004142 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 572479004143 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 572479004144 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 572479004145 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 572479004146 ABC-ATPase subunit interface; other site 572479004147 dimer interface [polypeptide binding]; other site 572479004148 putative PBP binding regions; other site 572479004149 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 572479004150 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 572479004151 N-terminal plug; other site 572479004152 ligand-binding site [chemical binding]; other site 572479004153 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 572479004154 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 572479004155 intersubunit interface [polypeptide binding]; other site 572479004156 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 572479004157 homodimer interaction site [polypeptide binding]; other site 572479004158 cofactor binding site; other site 572479004159 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 572479004160 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572479004161 Walker A/P-loop; other site 572479004162 ATP binding site [chemical binding]; other site 572479004163 Q-loop/lid; other site 572479004164 ABC transporter signature motif; other site 572479004165 Walker B; other site 572479004166 D-loop; other site 572479004167 H-loop/switch region; other site 572479004168 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 572479004169 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572479004170 Walker A/P-loop; other site 572479004171 ATP binding site [chemical binding]; other site 572479004172 Q-loop/lid; other site 572479004173 ABC transporter signature motif; other site 572479004174 Walker B; other site 572479004175 D-loop; other site 572479004176 H-loop/switch region; other site 572479004177 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 572479004178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479004179 putative PBP binding loops; other site 572479004180 ABC-ATPase subunit interface; other site 572479004181 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572479004182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479004183 dimer interface [polypeptide binding]; other site 572479004184 conserved gate region; other site 572479004185 putative PBP binding loops; other site 572479004186 ABC-ATPase subunit interface; other site 572479004187 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 572479004188 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_21; cd08520 572479004189 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 572479004190 methionine sulfoxide reductase B; Provisional; Region: PRK00222 572479004191 SelR domain; Region: SelR; pfam01641 572479004192 Protein of unknown function DUF89; Region: DUF89; cl15397 572479004193 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 572479004194 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 572479004195 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 572479004196 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 572479004197 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 572479004198 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 572479004199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479004200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479004201 metal binding site [ion binding]; metal-binding site 572479004202 active site 572479004203 I-site; other site 572479004204 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 572479004205 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 572479004206 active site 572479004207 substrate binding site [chemical binding]; other site 572479004208 metal binding site [ion binding]; metal-binding site 572479004209 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 572479004210 homopentamer interface [polypeptide binding]; other site 572479004211 active site 572479004212 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 572479004213 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 572479004214 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 572479004215 dimerization interface [polypeptide binding]; other site 572479004216 active site 572479004217 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 572479004218 Lumazine binding domain; Region: Lum_binding; pfam00677 572479004219 Lumazine binding domain; Region: Lum_binding; pfam00677 572479004220 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 572479004221 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 572479004222 catalytic motif [active] 572479004223 Zn binding site [ion binding]; other site 572479004224 RibD C-terminal domain; Region: RibD_C; cl17279 572479004225 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 572479004226 GAF domain; Region: GAF; pfam01590 572479004227 PAS domain S-box; Region: sensory_box; TIGR00229 572479004228 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 572479004229 putative active site [active] 572479004230 heme pocket [chemical binding]; other site 572479004231 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479004232 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479004233 metal binding site [ion binding]; metal-binding site 572479004234 active site 572479004235 I-site; other site 572479004236 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572479004237 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479004238 Zn2+ binding site [ion binding]; other site 572479004239 Mg2+ binding site [ion binding]; other site 572479004240 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 572479004241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479004242 Walker A/P-loop; other site 572479004243 ATP binding site [chemical binding]; other site 572479004244 Q-loop/lid; other site 572479004245 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572479004246 ABC transporter; Region: ABC_tran_2; pfam12848 572479004247 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572479004248 EDD domain protein, DegV family; Region: DegV; TIGR00762 572479004249 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 572479004250 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 572479004251 GTPase CgtA; Reviewed; Region: obgE; PRK12297 572479004252 GTP1/OBG; Region: GTP1_OBG; pfam01018 572479004253 Obg GTPase; Region: Obg; cd01898 572479004254 G1 box; other site 572479004255 GTP/Mg2+ binding site [chemical binding]; other site 572479004256 Switch I region; other site 572479004257 G2 box; other site 572479004258 G3 box; other site 572479004259 Switch II region; other site 572479004260 G4 box; other site 572479004261 G5 box; other site 572479004262 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 572479004263 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 572479004264 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 572479004265 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 572479004266 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 572479004267 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 572479004268 homodimer interface [polypeptide binding]; other site 572479004269 oligonucleotide binding site [chemical binding]; other site 572479004270 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cd00105 572479004271 nucleic acid binding region [nucleotide binding]; other site 572479004272 G-X-X-G motif; other site 572479004273 TRAM domain; Region: TRAM; cl01282 572479004274 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 572479004275 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 572479004276 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 572479004277 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 572479004278 B12 binding site [chemical binding]; other site 572479004279 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 572479004280 FeS/SAM binding site; other site 572479004281 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 572479004282 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 572479004283 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 572479004284 Switch I; other site 572479004285 Switch II; other site 572479004286 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 572479004287 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 572479004288 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 572479004289 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 572479004290 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 572479004291 rod shape-determining protein MreC; Provisional; Region: PRK13922 572479004292 rod shape-determining protein MreC; Region: MreC; pfam04085 572479004293 rod shape-determining protein MreB; Provisional; Region: PRK13927 572479004294 MreB and similar proteins; Region: MreB_like; cd10225 572479004295 nucleotide binding site [chemical binding]; other site 572479004296 Mg binding site [ion binding]; other site 572479004297 putative protofilament interaction site [polypeptide binding]; other site 572479004298 RodZ interaction site [polypeptide binding]; other site 572479004299 hypothetical protein; Reviewed; Region: PRK00024 572479004300 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 572479004301 MPN+ (JAMM) motif; other site 572479004302 Zinc-binding site [ion binding]; other site 572479004303 Maf-like protein; Region: Maf; pfam02545 572479004304 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 572479004305 active site 572479004306 dimer interface [polypeptide binding]; other site 572479004307 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 572479004308 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 572479004309 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572479004310 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 572479004311 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572479004312 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572479004313 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 572479004314 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572479004315 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572479004316 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572479004317 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 572479004318 electron transport complex RsxE subunit; Provisional; Region: PRK12405 572479004319 FMN-binding domain; Region: FMN_bind; cl01081 572479004320 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 572479004321 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 572479004322 SLBB domain; Region: SLBB; pfam10531 572479004323 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 572479004324 Sporulation related domain; Region: SPOR; pfam05036 572479004325 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 572479004326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572479004327 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572479004328 Divergent PAP2 family; Region: DUF212; pfam02681 572479004329 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 572479004330 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 572479004331 TPP-binding site [chemical binding]; other site 572479004332 dimer interface [polypeptide binding]; other site 572479004333 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 572479004334 PYR/PP interface [polypeptide binding]; other site 572479004335 dimer interface [polypeptide binding]; other site 572479004336 TPP binding site [chemical binding]; other site 572479004337 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572479004338 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572479004339 EamA-like transporter family; Region: EamA; pfam00892 572479004340 EamA-like transporter family; Region: EamA; pfam00892 572479004341 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 572479004342 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 572479004343 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 572479004344 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 572479004345 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; cl17639 572479004346 Asp23 family; Region: Asp23; cl00574 572479004347 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 572479004348 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 572479004349 dimer interface [polypeptide binding]; other site 572479004350 active site 572479004351 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 572479004352 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 572479004353 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 572479004354 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 572479004355 dimer interface [polypeptide binding]; other site 572479004356 active site 572479004357 CoA binding pocket [chemical binding]; other site 572479004358 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 572479004359 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 572479004360 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572479004361 active site 572479004362 HIGH motif; other site 572479004363 nucleotide binding site [chemical binding]; other site 572479004364 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572479004365 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 572479004366 active site 572479004367 KMSKS motif; other site 572479004368 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 572479004369 tRNA binding surface [nucleotide binding]; other site 572479004370 anticodon binding site; other site 572479004371 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 572479004372 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 572479004373 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572479004374 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 572479004375 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 572479004376 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572479004377 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 572479004378 dimerization interface [polypeptide binding]; other site 572479004379 putative DNA binding site [nucleotide binding]; other site 572479004380 putative Zn2+ binding site [ion binding]; other site 572479004381 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572479004382 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 572479004383 metal-binding site [ion binding] 572479004384 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572479004385 Soluble P-type ATPase [General function prediction only]; Region: COG4087 572479004386 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572479004387 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572479004388 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572479004389 Peptidase family M23; Region: Peptidase_M23; pfam01551 572479004390 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572479004391 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479004392 Zn2+ binding site [ion binding]; other site 572479004393 Mg2+ binding site [ion binding]; other site 572479004394 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 572479004395 C-terminal domain interface [polypeptide binding]; other site 572479004396 GSH binding site (G-site) [chemical binding]; other site 572479004397 dimer interface [polypeptide binding]; other site 572479004398 Predicted permease; Region: DUF318; cl17795 572479004399 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 572479004400 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572479004401 active site 572479004402 dimer interface [polypeptide binding]; other site 572479004403 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 572479004404 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 572479004405 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 572479004406 Uncharacterized conserved protein [Function unknown]; Region: COG2013 572479004407 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 572479004408 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 572479004409 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 572479004410 dimerization interface [polypeptide binding]; other site 572479004411 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479004412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479004413 dimer interface [polypeptide binding]; other site 572479004414 putative CheW interface [polypeptide binding]; other site 572479004415 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 572479004416 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 572479004417 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 572479004418 Hemerythrin; Region: Hemerythrin; cd12107 572479004419 Fe binding site [ion binding]; other site 572479004420 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 572479004421 dimer interface [polypeptide binding]; other site 572479004422 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 572479004423 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 572479004424 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572479004425 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479004426 putative lipid kinase; Reviewed; Region: PRK13059 572479004427 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 572479004428 Nitroreductase family; Region: Nitroreductase; pfam00881 572479004429 dimer interface [polypeptide binding]; other site 572479004430 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 572479004431 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 572479004432 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 572479004433 active site 572479004434 substrate binding site [chemical binding]; other site 572479004435 metal binding site [ion binding]; metal-binding site 572479004436 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 572479004437 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 572479004438 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 572479004439 metal binding site [ion binding]; metal-binding site 572479004440 putative dimer interface [polypeptide binding]; other site 572479004441 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 572479004442 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 572479004443 metal binding site [ion binding]; metal-binding site 572479004444 putative dimer interface [polypeptide binding]; other site 572479004445 allantoate amidohydrolase; Reviewed; Region: PRK09290 572479004446 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 572479004447 active site 572479004448 metal binding site [ion binding]; metal-binding site 572479004449 dimer interface [polypeptide binding]; other site 572479004450 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 572479004451 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 572479004452 active site 572479004453 P-loop; other site 572479004454 phosphorylation site [posttranslational modification] 572479004455 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 572479004456 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 572479004457 active site 572479004458 phosphorylation site [posttranslational modification] 572479004459 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 572479004460 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 572479004461 putative substrate binding site [chemical binding]; other site 572479004462 putative ATP binding site [chemical binding]; other site 572479004463 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 572479004464 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572479004465 DNA-binding site [nucleotide binding]; DNA binding site 572479004466 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 572479004467 oxaloacetate decarboxylase; Provisional; Region: PRK12331 572479004468 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 572479004469 active site 572479004470 catalytic residues [active] 572479004471 metal binding site [ion binding]; metal-binding site 572479004472 homodimer binding site [polypeptide binding]; other site 572479004473 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 572479004474 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479004475 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479004476 metal binding site [ion binding]; metal-binding site 572479004477 active site 572479004478 I-site; other site 572479004479 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 572479004480 active site 572479004481 methionine cluster; other site 572479004482 phosphorylation site [posttranslational modification] 572479004483 metal binding site [ion binding]; metal-binding site 572479004484 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 572479004485 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 572479004486 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 572479004487 active site 572479004488 substrate binding site [chemical binding]; other site 572479004489 metal binding site [ion binding]; metal-binding site 572479004490 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 572479004491 N-terminal domain of chitobiose phosphorylase (ChBP) and similar proteins; Region: GH94N_ChBP_like; cd11755 572479004492 catalytic domain interface [polypeptide binding]; other site 572479004493 putative homodimer interface [polypeptide binding]; other site 572479004494 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479004495 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479004496 dimer interface [polypeptide binding]; other site 572479004497 conserved gate region; other site 572479004498 putative PBP binding loops; other site 572479004499 ABC-ATPase subunit interface; other site 572479004500 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479004501 dimer interface [polypeptide binding]; other site 572479004502 conserved gate region; other site 572479004503 putative PBP binding loops; other site 572479004504 ABC-ATPase subunit interface; other site 572479004505 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572479004506 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479004507 methionine cluster; other site 572479004508 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cl00166 572479004509 active site 572479004510 phosphorylation site [posttranslational modification] 572479004511 metal binding site [ion binding]; metal-binding site 572479004512 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 572479004513 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 572479004514 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 572479004515 active site 572479004516 P-loop; other site 572479004517 phosphorylation site [posttranslational modification] 572479004518 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 572479004519 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 572479004520 Walker A motif; other site 572479004521 ATP binding site [chemical binding]; other site 572479004522 Walker B motif; other site 572479004523 arginine finger; other site 572479004524 Transcriptional antiterminator [Transcription]; Region: COG3933 572479004525 PRD domain; Region: PRD; pfam00874 572479004526 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 572479004527 active pocket/dimerization site; other site 572479004528 active site 572479004529 phosphorylation site [posttranslational modification] 572479004530 PRD domain; Region: PRD; pfam00874 572479004531 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 572479004532 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 572479004533 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 572479004534 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 572479004535 dimerization interface [polypeptide binding]; other site 572479004536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479004537 dimer interface [polypeptide binding]; other site 572479004538 putative CheW interface [polypeptide binding]; other site 572479004539 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 572479004540 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 572479004541 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 572479004542 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 572479004543 putative active site [active] 572479004544 Uncharacterized conserved protein [Function unknown]; Region: COG3589 572479004545 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 572479004546 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 572479004547 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 572479004548 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 572479004549 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 572479004550 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 572479004551 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 572479004552 NAD binding site [chemical binding]; other site 572479004553 homodimer interface [polypeptide binding]; other site 572479004554 active site 572479004555 substrate binding site [chemical binding]; other site 572479004556 SprA-related family; Region: SprA-related; pfam12118 572479004557 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 572479004558 FtsJ-like methyltransferase; Region: FtsJ; cl17430 572479004559 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572479004560 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 572479004561 S-adenosylmethionine binding site [chemical binding]; other site 572479004562 Heme NO binding; Region: HNOB; pfam07700 572479004563 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 572479004564 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479004565 dimer interface [polypeptide binding]; other site 572479004566 putative CheW interface [polypeptide binding]; other site 572479004567 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 572479004568 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 572479004569 active site 572479004570 dimerization interface [polypeptide binding]; other site 572479004571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572479004572 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 572479004573 Coenzyme A binding pocket [chemical binding]; other site 572479004574 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 572479004575 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479004576 metal binding site [ion binding]; metal-binding site 572479004577 active site 572479004578 I-site; other site 572479004579 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 572479004580 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 572479004581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 572479004582 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 572479004583 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 572479004584 FeS/SAM binding site; other site 572479004585 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 572479004586 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 572479004587 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 572479004588 FeS/SAM binding site; other site 572479004589 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 572479004590 XapX domain; Region: XapX; TIGR03510 572479004591 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572479004592 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 572479004593 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 572479004594 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 572479004595 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 572479004596 G1 box; other site 572479004597 GTP/Mg2+ binding site [chemical binding]; other site 572479004598 Switch I region; other site 572479004599 G2 box; other site 572479004600 G3 box; other site 572479004601 Switch II region; other site 572479004602 G4 box; other site 572479004603 G5 box; other site 572479004604 Nucleoside recognition; Region: Gate; pfam07670 572479004605 Nucleoside recognition; Region: Gate; pfam07670 572479004606 FeoA domain; Region: FeoA; pfam04023 572479004607 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 572479004608 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 572479004609 HIGH motif; other site 572479004610 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572479004611 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 572479004612 active site 572479004613 KMSKS motif; other site 572479004614 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 572479004615 tRNA binding surface [nucleotide binding]; other site 572479004616 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572479004617 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 572479004618 Transcriptional regulator [Transcription]; Region: LytR; COG1316 572479004619 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 572479004620 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 572479004621 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 572479004622 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 572479004623 active site 572479004624 (T/H)XGH motif; other site 572479004625 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 572479004626 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 572479004627 trimer interface [polypeptide binding]; other site 572479004628 putative metal binding site [ion binding]; other site 572479004629 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 572479004630 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 572479004631 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 572479004632 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 572479004633 substrate binding pocket [chemical binding]; other site 572479004634 dimer interface [polypeptide binding]; other site 572479004635 inhibitor binding site; inhibition site 572479004636 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 572479004637 B12 binding site [chemical binding]; other site 572479004638 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 572479004639 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 572479004640 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 572479004641 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 572479004642 TPP-binding site [chemical binding]; other site 572479004643 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 572479004644 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 572479004645 dimer interface [polypeptide binding]; other site 572479004646 PYR/PP interface [polypeptide binding]; other site 572479004647 TPP binding site [chemical binding]; other site 572479004648 substrate binding site [chemical binding]; other site 572479004649 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572479004650 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 572479004651 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 572479004652 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 572479004653 nucleotide binding site [chemical binding]; other site 572479004654 Acetokinase family; Region: Acetate_kinase; cl17229 572479004655 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 572479004656 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 572479004657 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 572479004658 NAD binding site [chemical binding]; other site 572479004659 Phe binding site; other site 572479004660 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 572479004661 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 572479004662 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 572479004663 putative active site [active] 572479004664 heme pocket [chemical binding]; other site 572479004665 PAS domain; Region: PAS; smart00091 572479004666 putative active site [active] 572479004667 heme pocket [chemical binding]; other site 572479004668 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 572479004669 Walker A motif; other site 572479004670 ATP binding site [chemical binding]; other site 572479004671 Walker B motif; other site 572479004672 arginine finger; other site 572479004673 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 572479004674 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572479004675 MarR family; Region: MarR_2; pfam12802 572479004676 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572479004677 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 572479004678 Predicted membrane protein [Function unknown]; Region: COG2860 572479004679 UPF0126 domain; Region: UPF0126; pfam03458 572479004680 UPF0126 domain; Region: UPF0126; pfam03458 572479004681 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 572479004682 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 572479004683 putative NAD(P) binding site [chemical binding]; other site 572479004684 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 572479004685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572479004686 Coenzyme A binding pocket [chemical binding]; other site 572479004687 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 572479004688 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 572479004689 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 572479004690 metal binding site [ion binding]; metal-binding site 572479004691 dimer interface [polypeptide binding]; other site 572479004692 peptidase T; Region: peptidase-T; TIGR01882 572479004693 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 572479004694 metal binding site [ion binding]; metal-binding site 572479004695 dimer interface [polypeptide binding]; other site 572479004696 Predicted membrane protein [Function unknown]; Region: COG1288 572479004697 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 572479004698 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 572479004699 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 572479004700 Fic family protein [Function unknown]; Region: COG3177 572479004701 Fic/DOC family; Region: Fic; pfam02661 572479004702 Transposase; Region: HTH_Tnp_1; pfam01527 572479004703 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 572479004704 putative transposase OrfB; Reviewed; Region: PHA02517 572479004705 HTH-like domain; Region: HTH_21; pfam13276 572479004706 Integrase core domain; Region: rve; pfam00665 572479004707 Integrase core domain; Region: rve_3; pfam13683 572479004708 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 572479004709 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 572479004710 S-adenosylmethionine binding site [chemical binding]; other site 572479004711 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572479004712 Coenzyme A binding pocket [chemical binding]; other site 572479004713 YoaP-like; Region: YoaP; pfam14268 572479004714 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 572479004715 Predicted transcriptional regulator [Transcription]; Region: COG2378 572479004716 HTH domain; Region: HTH_11; pfam08279 572479004717 WYL domain; Region: WYL; pfam13280 572479004718 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 572479004719 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 572479004720 non-specific DNA binding site [nucleotide binding]; other site 572479004721 salt bridge; other site 572479004722 sequence-specific DNA binding site [nucleotide binding]; other site 572479004723 ATP-grasp ribosomal peptide maturase, SAV_5884 family; Region: GRASP_SAV_5884; TIGR04187 572479004724 EamA-like transporter family; Region: EamA; cl17759 572479004725 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572479004726 EamA-like transporter family; Region: EamA; pfam00892 572479004727 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 572479004728 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 572479004729 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 572479004730 NADP binding site [chemical binding]; other site 572479004731 dimer interface [polypeptide binding]; other site 572479004732 Predicted membrane protein [Function unknown]; Region: COG2855 572479004733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572479004734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572479004735 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 572479004736 dimerization interface [polypeptide binding]; other site 572479004737 Peptidase family M48; Region: Peptidase_M48; cl12018 572479004738 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 572479004739 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 572479004740 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572479004741 TrkA-N domain; Region: TrkA_N; pfam02254 572479004742 TrkA-C domain; Region: TrkA_C; pfam02080 572479004743 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572479004744 TrkA-N domain; Region: TrkA_N; pfam02254 572479004745 Response regulator receiver domain; Region: Response_reg; pfam00072 572479004746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479004747 active site 572479004748 phosphorylation site [posttranslational modification] 572479004749 intermolecular recognition site; other site 572479004750 dimerization interface [polypeptide binding]; other site 572479004751 TPR repeat; Region: TPR_11; pfam13414 572479004752 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 572479004753 TPR motif; other site 572479004754 Response regulator receiver domain; Region: Response_reg; pfam00072 572479004755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479004756 active site 572479004757 phosphorylation site [posttranslational modification] 572479004758 intermolecular recognition site; other site 572479004759 dimerization interface [polypeptide binding]; other site 572479004760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 572479004761 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 572479004762 dimerization interface [polypeptide binding]; other site 572479004763 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 572479004764 putative active site [active] 572479004765 heme pocket [chemical binding]; other site 572479004766 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 572479004767 dimer interface [polypeptide binding]; other site 572479004768 phosphorylation site [posttranslational modification] 572479004769 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 572479004770 ATP binding site [chemical binding]; other site 572479004771 Mg2+ binding site [ion binding]; other site 572479004772 G-X-G motif; other site 572479004773 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572479004774 TrkA-N domain; Region: TrkA_N; pfam02254 572479004775 TrkA-C domain; Region: TrkA_C; pfam02080 572479004776 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 572479004777 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 572479004778 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 572479004779 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 572479004780 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 572479004781 dimerization interface [polypeptide binding]; other site 572479004782 DPS ferroxidase diiron center [ion binding]; other site 572479004783 ion pore; other site 572479004784 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 572479004785 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 572479004786 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 572479004787 putative active site [active] 572479004788 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 572479004789 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 572479004790 putative active site cavity [active] 572479004791 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 572479004792 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 572479004793 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 572479004794 active site turn [active] 572479004795 phosphorylation site [posttranslational modification] 572479004796 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 572479004797 putative homodimer interface [polypeptide binding]; other site 572479004798 putative homotetramer interface [polypeptide binding]; other site 572479004799 putative allosteric switch controlling residues; other site 572479004800 putative metal binding site [ion binding]; other site 572479004801 putative homodimer-homodimer interface [polypeptide binding]; other site 572479004802 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572479004803 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 572479004804 metal-binding site [ion binding] 572479004805 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572479004806 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 572479004807 metal-binding site [ion binding] 572479004808 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572479004809 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 572479004810 motif II; other site 572479004811 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 572479004812 metal-binding site [ion binding] 572479004813 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 572479004814 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572479004815 Soluble P-type ATPase [General function prediction only]; Region: COG4087 572479004816 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572479004817 Flavodoxins [Energy production and conversion]; Region: FldA; COG0716 572479004818 Sulphur transport; Region: Sulf_transp; pfam04143 572479004819 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 572479004820 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479004821 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572479004822 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 572479004823 active site residue [active] 572479004824 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 572479004825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479004826 dimer interface [polypeptide binding]; other site 572479004827 conserved gate region; other site 572479004828 putative PBP binding loops; other site 572479004829 ABC-ATPase subunit interface; other site 572479004830 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 572479004831 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 572479004832 substrate binding pocket [chemical binding]; other site 572479004833 membrane-bound complex binding site; other site 572479004834 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 572479004835 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 572479004836 Walker A/P-loop; other site 572479004837 ATP binding site [chemical binding]; other site 572479004838 Q-loop/lid; other site 572479004839 ABC transporter signature motif; other site 572479004840 Walker B; other site 572479004841 D-loop; other site 572479004842 H-loop/switch region; other site 572479004843 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 572479004844 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 572479004845 putative active site [active] 572479004846 putative NTP binding site [chemical binding]; other site 572479004847 putative nucleic acid binding site [nucleotide binding]; other site 572479004848 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 572479004849 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 572479004850 active site residue [active] 572479004851 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 572479004852 active site residue [active] 572479004853 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 572479004854 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 572479004855 active site residue [active] 572479004856 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 572479004857 active site residue [active] 572479004858 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 572479004859 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 572479004860 Walker A/P-loop; other site 572479004861 ATP binding site [chemical binding]; other site 572479004862 Q-loop/lid; other site 572479004863 ABC transporter signature motif; other site 572479004864 Walker B; other site 572479004865 D-loop; other site 572479004866 H-loop/switch region; other site 572479004867 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 572479004868 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479004869 dimer interface [polypeptide binding]; other site 572479004870 putative PBP binding loops; other site 572479004871 ABC-ATPase subunit interface; other site 572479004872 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 572479004873 NMT1-like family; Region: NMT1_2; pfam13379 572479004874 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 572479004875 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 572479004876 Ligand binding site; other site 572479004877 Putative Catalytic site; other site 572479004878 DXD motif; other site 572479004879 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 572479004880 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 572479004881 inhibitor-cofactor binding pocket; inhibition site 572479004882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479004883 catalytic residue [active] 572479004884 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572479004885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572479004886 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 572479004887 dimerization interface [polypeptide binding]; other site 572479004888 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 572479004889 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 572479004890 NAD binding site [chemical binding]; other site 572479004891 substrate binding site [chemical binding]; other site 572479004892 homodimer interface [polypeptide binding]; other site 572479004893 active site 572479004894 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 572479004895 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 572479004896 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 572479004897 Low molecular weight phosphatase family; Region: LMWPc; cd00115 572479004898 active site 572479004899 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 572479004900 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 572479004901 putative substrate translocation pore; other site 572479004902 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 572479004903 active site 572479004904 putative catalytic site [active] 572479004905 phosphate binding site A [ion binding]; other site 572479004906 DNA binding site [nucleotide binding] 572479004907 metal binding site A [ion binding]; metal-binding site 572479004908 putative AP binding site [nucleotide binding]; other site 572479004909 putative metal binding site B [ion binding]; other site 572479004910 phosphate binding site B [ion binding]; other site 572479004911 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 572479004912 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 572479004913 acyl-activating enzyme (AAE) consensus motif; other site 572479004914 putative AMP binding site [chemical binding]; other site 572479004915 putative active site [active] 572479004916 putative CoA binding site [chemical binding]; other site 572479004917 Peptidase M15; Region: Peptidase_M15_3; cl01194 572479004918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 572479004919 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 572479004920 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 572479004921 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 572479004922 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572479004923 MarR family; Region: MarR_2; pfam12802 572479004924 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 572479004925 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 572479004926 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 572479004927 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 572479004928 switch II; other site 572479004929 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 572479004930 Ferredoxin [Energy production and conversion]; Region: COG1146 572479004931 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 572479004932 Uncharacterized conserved protein [Function unknown]; Region: COG1433 572479004933 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 572479004934 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 572479004935 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 572479004936 active site residue [active] 572479004937 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 572479004938 Na2 binding site [ion binding]; other site 572479004939 putative substrate binding site 1 [chemical binding]; other site 572479004940 Na binding site 1 [ion binding]; other site 572479004941 putative substrate binding site 2 [chemical binding]; other site 572479004942 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 572479004943 Na2 binding site [ion binding]; other site 572479004944 putative substrate binding site 1 [chemical binding]; other site 572479004945 Na binding site 1 [ion binding]; other site 572479004946 putative substrate binding site 2 [chemical binding]; other site 572479004947 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 572479004948 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 572479004949 S-adenosylmethionine binding site [chemical binding]; other site 572479004950 Predicted membrane protein [Function unknown]; Region: COG1971 572479004951 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 572479004952 hexamer interface [polypeptide binding]; other site 572479004953 RNA binding site [nucleotide binding]; other site 572479004954 Histidine-zinc binding site [chemical binding]; other site 572479004955 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 572479004956 zinc binding site [ion binding]; other site 572479004957 putative ligand binding site [chemical binding]; other site 572479004958 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572479004959 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 572479004960 TM-ABC transporter signature motif; other site 572479004961 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 572479004962 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479004963 Walker A/P-loop; other site 572479004964 ATP binding site [chemical binding]; other site 572479004965 Q-loop/lid; other site 572479004966 ABC transporter signature motif; other site 572479004967 Walker B; other site 572479004968 D-loop; other site 572479004969 H-loop/switch region; other site 572479004970 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479004971 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479004972 dimer interface [polypeptide binding]; other site 572479004973 conserved gate region; other site 572479004974 putative PBP binding loops; other site 572479004975 ABC-ATPase subunit interface; other site 572479004976 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479004977 dimer interface [polypeptide binding]; other site 572479004978 conserved gate region; other site 572479004979 ABC-ATPase subunit interface; other site 572479004980 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 572479004981 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479004982 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 572479004983 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 572479004984 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 572479004985 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572479004986 Walker A/P-loop; other site 572479004987 ATP binding site [chemical binding]; other site 572479004988 Q-loop/lid; other site 572479004989 ABC transporter signature motif; other site 572479004990 Walker B; other site 572479004991 D-loop; other site 572479004992 H-loop/switch region; other site 572479004993 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 572479004994 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 572479004995 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572479004996 Walker A/P-loop; other site 572479004997 ATP binding site [chemical binding]; other site 572479004998 Q-loop/lid; other site 572479004999 ABC transporter signature motif; other site 572479005000 Walker B; other site 572479005001 D-loop; other site 572479005002 H-loop/switch region; other site 572479005003 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 572479005004 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 572479005005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479005006 dimer interface [polypeptide binding]; other site 572479005007 conserved gate region; other site 572479005008 putative PBP binding loops; other site 572479005009 ABC-ATPase subunit interface; other site 572479005010 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572479005011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479005012 dimer interface [polypeptide binding]; other site 572479005013 conserved gate region; other site 572479005014 putative PBP binding loops; other site 572479005015 ABC-ATPase subunit interface; other site 572479005016 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 572479005017 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 572479005018 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 572479005019 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 572479005020 N-acetyl-D-glucosamine binding site [chemical binding]; other site 572479005021 catalytic residue [active] 572479005022 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 572479005023 CoA-binding site [chemical binding]; other site 572479005024 ATP-binding [chemical binding]; other site 572479005025 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 572479005026 active site 572479005027 dimer interfaces [polypeptide binding]; other site 572479005028 catalytic residues [active] 572479005029 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 572479005030 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 572479005031 DNA binding site [nucleotide binding] 572479005032 catalytic residue [active] 572479005033 H2TH interface [polypeptide binding]; other site 572479005034 putative catalytic residues [active] 572479005035 turnover-facilitating residue; other site 572479005036 intercalation triad [nucleotide binding]; other site 572479005037 8OG recognition residue [nucleotide binding]; other site 572479005038 putative reading head residues; other site 572479005039 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 572479005040 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 572479005041 DNA polymerase I; Provisional; Region: PRK05755 572479005042 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 572479005043 active site 572479005044 metal binding site 1 [ion binding]; metal-binding site 572479005045 putative 5' ssDNA interaction site; other site 572479005046 metal binding site 3; metal-binding site 572479005047 metal binding site 2 [ion binding]; metal-binding site 572479005048 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 572479005049 putative DNA binding site [nucleotide binding]; other site 572479005050 putative metal binding site [ion binding]; other site 572479005051 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 572479005052 active site 572479005053 substrate binding site [chemical binding]; other site 572479005054 catalytic site [active] 572479005055 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 572479005056 active site 572479005057 DNA binding site [nucleotide binding] 572479005058 catalytic site [active] 572479005059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572479005060 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 572479005061 dimerization interface [polypeptide binding]; other site 572479005062 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 572479005063 dimer interface [polypeptide binding]; other site 572479005064 phosphorylation site [posttranslational modification] 572479005065 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 572479005066 ATP binding site [chemical binding]; other site 572479005067 Mg2+ binding site [ion binding]; other site 572479005068 G-X-G motif; other site 572479005069 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572479005070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479005071 active site 572479005072 phosphorylation site [posttranslational modification] 572479005073 intermolecular recognition site; other site 572479005074 dimerization interface [polypeptide binding]; other site 572479005075 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 572479005076 DNA binding site [nucleotide binding] 572479005077 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 572479005078 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 572479005079 protein binding site [polypeptide binding]; other site 572479005080 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 572479005081 catalytic core [active] 572479005082 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 572479005083 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 572479005084 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 572479005085 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 572479005086 Domain of unknown function (DUF368); Region: DUF368; pfam04018 572479005087 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 572479005088 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 572479005089 dimer interface [polypeptide binding]; other site 572479005090 active site 572479005091 metal binding site [ion binding]; metal-binding site 572479005092 glutathione binding site [chemical binding]; other site 572479005093 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479005094 active site 572479005095 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 572479005096 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 572479005097 heterodimer interface [polypeptide binding]; other site 572479005098 active site 572479005099 FMN binding site [chemical binding]; other site 572479005100 homodimer interface [polypeptide binding]; other site 572479005101 substrate binding site [chemical binding]; other site 572479005102 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 572479005103 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 572479005104 FAD binding pocket [chemical binding]; other site 572479005105 FAD binding motif [chemical binding]; other site 572479005106 phosphate binding motif [ion binding]; other site 572479005107 beta-alpha-beta structure motif; other site 572479005108 NAD binding pocket [chemical binding]; other site 572479005109 Iron coordination center [ion binding]; other site 572479005110 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 572479005111 active site 572479005112 dimer interface [polypeptide binding]; other site 572479005113 dihydroorotase; Validated; Region: pyrC; PRK09357 572479005114 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 572479005115 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 572479005116 active site 572479005117 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 572479005118 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 572479005119 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 572479005120 uracil-xanthine permease; Region: ncs2; TIGR00801 572479005121 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 572479005122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479005123 active site 572479005124 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 572479005125 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572479005126 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 572479005127 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 572479005128 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572479005129 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572479005130 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 572479005131 IMP binding site; other site 572479005132 dimer interface [polypeptide binding]; other site 572479005133 interdomain contacts; other site 572479005134 partial ornithine binding site; other site 572479005135 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 572479005136 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 572479005137 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 572479005138 catalytic site [active] 572479005139 subunit interface [polypeptide binding]; other site 572479005140 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 6-stranded beta/alpha barrel; Region: CE4_DAC_u1_6s; cd10970 572479005141 putative active site [active] 572479005142 putative metal binding site [ion binding]; other site 572479005143 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 572479005144 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 572479005145 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 572479005146 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 572479005147 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572479005148 catalytic residue [active] 572479005149 Protein of unknown function (DUF342); Region: DUF342; pfam03961 572479005150 EDD domain protein, DegV family; Region: DegV; TIGR00762 572479005151 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 572479005152 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 572479005153 DNA-binding site [nucleotide binding]; DNA binding site 572479005154 RNA-binding motif; other site 572479005155 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 572479005156 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572479005157 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 572479005158 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 572479005159 active site 572479005160 metal binding site [ion binding]; metal-binding site 572479005161 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 572479005162 Cache domain; Region: Cache_1; pfam02743 572479005163 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 572479005164 dimerization interface [polypeptide binding]; other site 572479005165 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479005166 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479005167 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479005168 dimer interface [polypeptide binding]; other site 572479005169 putative CheW interface [polypeptide binding]; other site 572479005170 flavoprotein, HI0933 family; Region: TIGR00275 572479005171 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479005172 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 572479005173 PAS domain S-box; Region: sensory_box; TIGR00229 572479005174 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572479005175 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479005176 Zn2+ binding site [ion binding]; other site 572479005177 Mg2+ binding site [ion binding]; other site 572479005178 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572479005179 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572479005180 DNA-binding site [nucleotide binding]; DNA binding site 572479005181 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 572479005182 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 572479005183 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572479005184 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 572479005185 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 572479005186 Soluble P-type ATPase [General function prediction only]; Region: COG4087 572479005187 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 572479005188 intracellular protease, PfpI family; Region: PfpI; TIGR01382 572479005189 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 572479005190 proposed catalytic triad [active] 572479005191 conserved cys residue [active] 572479005192 Predicted membrane protein [Function unknown]; Region: COG4325 572479005193 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 572479005194 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 572479005195 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 572479005196 active site 572479005197 catalytic tetrad [active] 572479005198 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 572479005199 putative active site [active] 572479005200 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 572479005201 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 572479005202 inhibitor-cofactor binding pocket; inhibition site 572479005203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479005204 catalytic residue [active] 572479005205 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 572479005206 putative acyl-acceptor binding pocket; other site 572479005207 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; cd00384 572479005208 dimer interface [polypeptide binding]; other site 572479005209 active site 572479005210 Schiff base residues; other site 572479005211 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 572479005212 active site 572479005213 SAM binding site [chemical binding]; other site 572479005214 homodimer interface [polypeptide binding]; other site 572479005215 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 572479005216 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 572479005217 active site 572479005218 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 572479005219 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 572479005220 domain interfaces; other site 572479005221 active site 572479005222 cobalamin synthase; Reviewed; Region: cobS; PRK00235 572479005223 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 572479005224 homotrimer interface [polypeptide binding]; other site 572479005225 Walker A motif; other site 572479005226 GTP binding site [chemical binding]; other site 572479005227 Walker B motif; other site 572479005228 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 572479005229 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 572479005230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479005231 homodimer interface [polypeptide binding]; other site 572479005232 catalytic residue [active] 572479005233 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 572479005234 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 572479005235 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 572479005236 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 572479005237 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 572479005238 catalytic triad [active] 572479005239 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 572479005240 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 572479005241 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 572479005242 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 572479005243 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 572479005244 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 572479005245 active site 572479005246 SAM binding site [chemical binding]; other site 572479005247 homodimer interface [polypeptide binding]; other site 572479005248 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 572479005249 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 572479005250 Walker A/P-loop; other site 572479005251 ATP binding site [chemical binding]; other site 572479005252 Q-loop/lid; other site 572479005253 ABC transporter signature motif; other site 572479005254 Walker B; other site 572479005255 D-loop; other site 572479005256 H-loop/switch region; other site 572479005257 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 572479005258 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 572479005259 cobalt transport protein CbiM; Validated; Region: PRK06265 572479005260 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 572479005261 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 572479005262 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 572479005263 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 572479005264 active site 572479005265 SAM binding site [chemical binding]; other site 572479005266 homodimer interface [polypeptide binding]; other site 572479005267 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 572479005268 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 572479005269 active site 572479005270 C-terminal domain interface [polypeptide binding]; other site 572479005271 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 572479005272 active site 572479005273 N-terminal domain interface [polypeptide binding]; other site 572479005274 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 572479005275 active site 572479005276 SAM binding site [chemical binding]; other site 572479005277 homodimer interface [polypeptide binding]; other site 572479005278 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 572479005279 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 572479005280 S-adenosylmethionine binding site [chemical binding]; other site 572479005281 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 572479005282 active site 572479005283 putative homodimer interface [polypeptide binding]; other site 572479005284 SAM binding site [chemical binding]; other site 572479005285 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 572479005286 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 572479005287 Precorrin-8X methylmutase; Region: CbiC; pfam02570 572479005288 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 572479005289 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 572479005290 homodimer interface [polypeptide binding]; other site 572479005291 Walker A motif; other site 572479005292 ATP binding site [chemical binding]; other site 572479005293 hydroxycobalamin binding site [chemical binding]; other site 572479005294 Walker B motif; other site 572479005295 cobyric acid synthase; Provisional; Region: PRK00784 572479005296 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 572479005297 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 572479005298 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 572479005299 catalytic triad [active] 572479005300 cobyric acid synthase; Provisional; Region: PRK00784 572479005301 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 572479005302 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 572479005303 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 572479005304 catalytic triad [active] 572479005305 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 572479005306 catalytic core [active] 572479005307 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 572479005308 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 572479005309 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 572479005310 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 572479005311 tRNA; other site 572479005312 putative tRNA binding site [nucleotide binding]; other site 572479005313 putative NADP binding site [chemical binding]; other site 572479005314 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 572479005315 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 572479005316 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 572479005317 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 572479005318 Cache domain; Region: Cache_1; pfam02743 572479005319 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 572479005320 dimerization interface [polypeptide binding]; other site 572479005321 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479005322 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479005323 dimer interface [polypeptide binding]; other site 572479005324 putative CheW interface [polypeptide binding]; other site 572479005325 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 572479005326 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 572479005327 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 572479005328 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572479005329 catalytic residue [active] 572479005330 Ferredoxin [Energy production and conversion]; Region: COG1146 572479005331 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572479005332 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 572479005333 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 572479005334 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 572479005335 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 572479005336 Ligand binding site [chemical binding]; other site 572479005337 Electron transfer flavoprotein domain; Region: ETF; pfam01012 572479005338 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 572479005339 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 572479005340 FAD binding site [chemical binding]; other site 572479005341 homotetramer interface [polypeptide binding]; other site 572479005342 substrate binding pocket [chemical binding]; other site 572479005343 catalytic base [active] 572479005344 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 572479005345 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 572479005346 active site 572479005347 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 572479005348 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 572479005349 substrate binding site [chemical binding]; other site 572479005350 oxyanion hole (OAH) forming residues; other site 572479005351 trimer interface [polypeptide binding]; other site 572479005352 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 572479005353 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 572479005354 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 572479005355 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 572479005356 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 572479005357 metal binding site [ion binding]; metal-binding site 572479005358 dimer interface [polypeptide binding]; other site 572479005359 putative acyltransferase; Provisional; Region: PRK05790 572479005360 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 572479005361 dimer interface [polypeptide binding]; other site 572479005362 active site 572479005363 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 572479005364 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 572479005365 FeS/SAM binding site; other site 572479005366 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 572479005367 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 572479005368 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 572479005369 Coenzyme A transferase; Region: CoA_trans; cl17247 572479005370 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 572479005371 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; cd03440 572479005372 active site 2 [active] 572479005373 active site 1 [active] 572479005374 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 572479005375 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 572479005376 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 572479005377 B12 binding site [chemical binding]; other site 572479005378 cobalt ligand [ion binding]; other site 572479005379 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 572479005380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479005381 Walker A/P-loop; other site 572479005382 ATP binding site [chemical binding]; other site 572479005383 Q-loop/lid; other site 572479005384 ABC transporter signature motif; other site 572479005385 Walker B; other site 572479005386 D-loop; other site 572479005387 H-loop/switch region; other site 572479005388 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 572479005389 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 572479005390 NAD(P) binding site [chemical binding]; other site 572479005391 FOG: CBS domain [General function prediction only]; Region: COG0517 572479005392 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 572479005393 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 572479005394 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 572479005395 putative active site [active] 572479005396 heme pocket [chemical binding]; other site 572479005397 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 572479005398 putative active site [active] 572479005399 heme pocket [chemical binding]; other site 572479005400 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 572479005401 Walker A motif; other site 572479005402 ATP binding site [chemical binding]; other site 572479005403 Walker B motif; other site 572479005404 arginine finger; other site 572479005405 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 572479005406 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 572479005407 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 572479005408 homodimer interface [polypeptide binding]; other site 572479005409 NADP binding site [chemical binding]; other site 572479005410 substrate binding site [chemical binding]; other site 572479005411 hypothetical protein; Provisional; Region: PRK13690 572479005412 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572479005413 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 572479005414 active site 572479005415 metal binding site [ion binding]; metal-binding site 572479005416 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 572479005417 putative hydrolase; Validated; Region: PRK09248 572479005418 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 572479005419 active site 572479005420 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572479005421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572479005422 Walker A/P-loop; other site 572479005423 ATP binding site [chemical binding]; other site 572479005424 Q-loop/lid; other site 572479005425 ABC transporter signature motif; other site 572479005426 Walker B; other site 572479005427 D-loop; other site 572479005428 H-loop/switch region; other site 572479005429 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572479005430 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479005431 dimer interface [polypeptide binding]; other site 572479005432 conserved gate region; other site 572479005433 putative PBP binding loops; other site 572479005434 ABC-ATPase subunit interface; other site 572479005435 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572479005436 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 572479005437 substrate binding pocket [chemical binding]; other site 572479005438 membrane-bound complex binding site; other site 572479005439 hinge residues; other site 572479005440 pyruvate kinase; Provisional; Region: PRK06354 572479005441 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 572479005442 domain interfaces; other site 572479005443 active site 572479005444 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 572479005445 6-phosphofructokinase; Provisional; Region: PRK03202 572479005446 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 572479005447 active site 572479005448 ADP/pyrophosphate binding site [chemical binding]; other site 572479005449 dimerization interface [polypeptide binding]; other site 572479005450 allosteric effector site; other site 572479005451 fructose-1,6-bisphosphate binding site; other site 572479005452 transcription attenuation protein MtrB; Provisional; Region: PRK13251 572479005453 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 572479005454 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 572479005455 active site 572479005456 PHP Thumb interface [polypeptide binding]; other site 572479005457 metal binding site [ion binding]; metal-binding site 572479005458 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 572479005459 generic binding surface I; other site 572479005460 generic binding surface II; other site 572479005461 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 572479005462 Protein of unknown function (DUF964); Region: DUF964; cl01483 572479005463 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 572479005464 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 572479005465 active site 572479005466 metal binding site [ion binding]; metal-binding site 572479005467 homotetramer interface [polypeptide binding]; other site 572479005468 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 572479005469 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 572479005470 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 572479005471 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 572479005472 S-adenosylmethionine binding site [chemical binding]; other site 572479005473 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 572479005474 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572479005475 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 572479005476 dimerization interface [polypeptide binding]; other site 572479005477 putative DNA binding site [nucleotide binding]; other site 572479005478 putative Zn2+ binding site [ion binding]; other site 572479005479 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 572479005480 putative active site [active] 572479005481 putative CoA binding site [chemical binding]; other site 572479005482 nudix motif; other site 572479005483 metal binding site [ion binding]; metal-binding site 572479005484 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 572479005485 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 572479005486 GatB domain; Region: GatB_Yqey; smart00845 572479005487 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 572479005488 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 572479005489 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 572479005490 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 572479005491 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 572479005492 nucleotide binding pocket [chemical binding]; other site 572479005493 K-X-D-G motif; other site 572479005494 catalytic site [active] 572479005495 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 572479005496 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 572479005497 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 572479005498 Dimer interface [polypeptide binding]; other site 572479005499 BRCT sequence motif; other site 572479005500 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 572479005501 Part of AAA domain; Region: AAA_19; pfam13245 572479005502 Family description; Region: UvrD_C_2; pfam13538 572479005503 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 572479005504 GIY-YIG motif/motif A; other site 572479005505 putative active site [active] 572479005506 putative metal binding site [ion binding]; other site 572479005507 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 572479005508 4Fe-4S binding domain; Region: Fer4; cl02805 572479005509 4Fe-4S binding domain; Region: Fer4; pfam00037 572479005510 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572479005511 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 572479005512 putative dimer interface [polypeptide binding]; other site 572479005513 [2Fe-2S] cluster binding site [ion binding]; other site 572479005514 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 572479005515 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572479005516 4Fe-4S binding domain; Region: Fer4; pfam00037 572479005517 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572479005518 PAS domain; Region: PAS; smart00091 572479005519 PAS domain; Region: PAS_9; pfam13426 572479005520 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 572479005521 dimer interface [polypeptide binding]; other site 572479005522 [2Fe-2S] cluster binding site [ion binding]; other site 572479005523 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 572479005524 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 572479005525 HflX GTPase family; Region: HflX; cd01878 572479005526 G1 box; other site 572479005527 GTP/Mg2+ binding site [chemical binding]; other site 572479005528 Switch I region; other site 572479005529 G2 box; other site 572479005530 G3 box; other site 572479005531 Switch II region; other site 572479005532 G4 box; other site 572479005533 G5 box; other site 572479005534 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 572479005535 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 572479005536 dimerization interface [polypeptide binding]; other site 572479005537 domain crossover interface; other site 572479005538 redox-dependent activation switch; other site 572479005539 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 572479005540 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 572479005541 DHH family; Region: DHH; pfam01368 572479005542 DHHA1 domain; Region: DHHA1; pfam02272 572479005543 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 572479005544 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 572479005545 Part of AAA domain; Region: AAA_19; pfam13245 572479005546 Family description; Region: UvrD_C_2; pfam13538 572479005547 putative recombination protein RecB; Provisional; Region: PRK13909 572479005548 Protein of unknown function (DUF456); Region: DUF456; pfam04306 572479005549 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572479005550 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 572479005551 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 572479005552 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572479005553 Trp repressor protein; Region: Trp_repressor; cl17266 572479005554 GMP synthase; Reviewed; Region: guaA; PRK00074 572479005555 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 572479005556 AMP/PPi binding site [chemical binding]; other site 572479005557 candidate oxyanion hole; other site 572479005558 catalytic triad [active] 572479005559 potential glutamine specificity residues [chemical binding]; other site 572479005560 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 572479005561 ATP Binding subdomain [chemical binding]; other site 572479005562 Ligand Binding sites [chemical binding]; other site 572479005563 Dimerization subdomain; other site 572479005564 pyruvate phosphate dikinase; Provisional; Region: PRK09279 572479005565 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 572479005566 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 572479005567 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 572479005568 PEP synthetase regulatory protein; Provisional; Region: PRK05339 572479005569 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 572479005570 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 572479005571 ring oligomerisation interface [polypeptide binding]; other site 572479005572 ATP/Mg binding site [chemical binding]; other site 572479005573 stacking interactions; other site 572479005574 hinge regions; other site 572479005575 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 572479005576 oligomerisation interface [polypeptide binding]; other site 572479005577 mobile loop; other site 572479005578 roof hairpin; other site 572479005579 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 572479005580 Radical SAM superfamily; Region: Radical_SAM; pfam04055 572479005581 FeS/SAM binding site; other site 572479005582 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 572479005583 Protein of unknown function (DUF512); Region: DUF512; pfam04459 572479005584 UGMP family protein; Validated; Region: PRK09604 572479005585 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 572479005586 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572479005587 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 572479005588 Glycoprotease family; Region: Peptidase_M22; pfam00814 572479005589 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 572479005590 pyrroline-5-carboxylate reductase; Region: PLN02688 572479005591 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 572479005592 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 572479005593 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 572479005594 putative catalytic cysteine [active] 572479005595 gamma-glutamyl kinase; Provisional; Region: PRK05429 572479005596 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 572479005597 nucleotide binding site [chemical binding]; other site 572479005598 homotetrameric interface [polypeptide binding]; other site 572479005599 putative phosphate binding site [ion binding]; other site 572479005600 putative allosteric binding site; other site 572479005601 PUA domain; Region: PUA; pfam01472 572479005602 CAT RNA binding domain; Region: CAT_RBD; smart01061 572479005603 transcriptional antiterminator BglG; Provisional; Region: PRK09772 572479005604 PRD domain; Region: PRD; pfam00874 572479005605 PRD domain; Region: PRD; pfam00874 572479005606 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 572479005607 catalytic loop [active] 572479005608 iron binding site [ion binding]; other site 572479005609 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 572479005610 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 572479005611 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 572479005612 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572479005613 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 572479005614 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 572479005615 dimer interface [polypeptide binding]; other site 572479005616 [2Fe-2S] cluster binding site [ion binding]; other site 572479005617 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 572479005618 SLBB domain; Region: SLBB; pfam10531 572479005619 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 572479005620 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 572479005621 4Fe-4S binding domain; Region: Fer4; pfam00037 572479005622 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572479005623 4Fe-4S binding domain; Region: Fer4; pfam00037 572479005624 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 572479005625 dimer interface [polypeptide binding]; other site 572479005626 [2Fe-2S] cluster binding site [ion binding]; other site 572479005627 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572479005628 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 572479005629 ATP binding site [chemical binding]; other site 572479005630 Mg2+ binding site [ion binding]; other site 572479005631 G-X-G motif; other site 572479005632 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 572479005633 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 572479005634 putative dimer interface [polypeptide binding]; other site 572479005635 [2Fe-2S] cluster binding site [ion binding]; other site 572479005636 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 572479005637 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 572479005638 active site 572479005639 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 572479005640 DRTGG domain; Region: DRTGG; pfam07085 572479005641 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572479005642 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572479005643 Putative Fe-S cluster; Region: FeS; cl17515 572479005644 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 572479005645 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 572479005646 ATP binding site [chemical binding]; other site 572479005647 G-X-G motif; other site 572479005648 DRTGG domain; Region: DRTGG; pfam07085 572479005649 PemK-like protein; Region: PemK; pfam02452 572479005650 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 572479005651 RNA binding site [nucleotide binding]; other site 572479005652 DNA helicase, putative; Region: TIGR00376 572479005653 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 572479005654 Walker A motif; other site 572479005655 ATP binding site [chemical binding]; other site 572479005656 AAA domain; Region: AAA_12; pfam13087 572479005657 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 572479005658 trimer interface [polypeptide binding]; other site 572479005659 active site 572479005660 Uncharacterized conserved protein [Function unknown]; Region: COG0062 572479005661 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 572479005662 putative substrate binding site [chemical binding]; other site 572479005663 putative ATP binding site [chemical binding]; other site 572479005664 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 572479005665 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 572479005666 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 572479005667 glutaminase active site [active] 572479005668 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 572479005669 dimer interface [polypeptide binding]; other site 572479005670 active site 572479005671 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 572479005672 dimer interface [polypeptide binding]; other site 572479005673 active site 572479005674 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 572479005675 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 572479005676 active site 572479005677 substrate binding site [chemical binding]; other site 572479005678 metal binding site [ion binding]; metal-binding site 572479005679 TIGR00159 family protein; Region: TIGR00159 572479005680 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 572479005681 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 572479005682 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 572479005683 FeS/SAM binding site; other site 572479005684 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 572479005685 AMMECR1; Region: AMMECR1; pfam01871 572479005686 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 572479005687 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 572479005688 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 572479005689 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 572479005690 23S rRNA interface [nucleotide binding]; other site 572479005691 L3 interface [polypeptide binding]; other site 572479005692 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 572479005693 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 572479005694 dimerization interface 3.5A [polypeptide binding]; other site 572479005695 active site 572479005696 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 572479005697 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 572479005698 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 572479005699 Walker A/P-loop; other site 572479005700 ATP binding site [chemical binding]; other site 572479005701 Q-loop/lid; other site 572479005702 ABC transporter signature motif; other site 572479005703 Walker B; other site 572479005704 D-loop; other site 572479005705 H-loop/switch region; other site 572479005706 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 572479005707 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 572479005708 Walker A/P-loop; other site 572479005709 ATP binding site [chemical binding]; other site 572479005710 Q-loop/lid; other site 572479005711 ABC transporter signature motif; other site 572479005712 Walker B; other site 572479005713 D-loop; other site 572479005714 H-loop/switch region; other site 572479005715 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 572479005716 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 572479005717 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 572479005718 alphaNTD homodimer interface [polypeptide binding]; other site 572479005719 alphaNTD - beta interaction site [polypeptide binding]; other site 572479005720 alphaNTD - beta' interaction site [polypeptide binding]; other site 572479005721 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 572479005722 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 572479005723 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 572479005724 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 572479005725 RNA binding surface [nucleotide binding]; other site 572479005726 30S ribosomal protein S11; Validated; Region: PRK05309 572479005727 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 572479005728 30S ribosomal protein S13; Region: bact_S13; TIGR03631 572479005729 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 572479005730 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 572479005731 rRNA binding site [nucleotide binding]; other site 572479005732 predicted 30S ribosome binding site; other site 572479005733 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 572479005734 active site 572479005735 adenylate kinase; Reviewed; Region: adk; PRK00279 572479005736 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 572479005737 AMP-binding site [chemical binding]; other site 572479005738 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 572479005739 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 572479005740 SecY translocase; Region: SecY; pfam00344 572479005741 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 572479005742 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 572479005743 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 572479005744 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 572479005745 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 572479005746 23S rRNA interface [nucleotide binding]; other site 572479005747 L21e interface [polypeptide binding]; other site 572479005748 5S rRNA interface [nucleotide binding]; other site 572479005749 L27 interface [polypeptide binding]; other site 572479005750 L5 interface [polypeptide binding]; other site 572479005751 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 572479005752 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 572479005753 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 572479005754 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 572479005755 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 572479005756 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 572479005757 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 572479005758 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 572479005759 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 572479005760 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 572479005761 RNA binding site [nucleotide binding]; other site 572479005762 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 572479005763 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 572479005764 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 572479005765 putative translocon interaction site; other site 572479005766 23S rRNA interface [nucleotide binding]; other site 572479005767 signal recognition particle (SRP54) interaction site; other site 572479005768 L23 interface [polypeptide binding]; other site 572479005769 trigger factor interaction site; other site 572479005770 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 572479005771 23S rRNA interface [nucleotide binding]; other site 572479005772 5S rRNA interface [nucleotide binding]; other site 572479005773 putative antibiotic binding site [chemical binding]; other site 572479005774 L25 interface [polypeptide binding]; other site 572479005775 L27 interface [polypeptide binding]; other site 572479005776 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 572479005777 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 572479005778 G-X-X-G motif; other site 572479005779 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 572479005780 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 572479005781 putative translocon binding site; other site 572479005782 protein-rRNA interface [nucleotide binding]; other site 572479005783 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 572479005784 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 572479005785 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 572479005786 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 572479005787 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 572479005788 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 572479005789 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 572479005790 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 572479005791 elongation factor G; Reviewed; Region: PRK00007 572479005792 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 572479005793 G1 box; other site 572479005794 putative GEF interaction site [polypeptide binding]; other site 572479005795 GTP/Mg2+ binding site [chemical binding]; other site 572479005796 Switch I region; other site 572479005797 G2 box; other site 572479005798 G3 box; other site 572479005799 Switch II region; other site 572479005800 G4 box; other site 572479005801 G5 box; other site 572479005802 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 572479005803 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 572479005804 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 572479005805 30S ribosomal protein S7; Validated; Region: PRK05302 572479005806 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 572479005807 S17 interaction site [polypeptide binding]; other site 572479005808 S8 interaction site; other site 572479005809 16S rRNA interaction site [nucleotide binding]; other site 572479005810 streptomycin interaction site [chemical binding]; other site 572479005811 23S rRNA interaction site [nucleotide binding]; other site 572479005812 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 572479005813 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 572479005814 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 572479005815 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 572479005816 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 572479005817 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 572479005818 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 572479005819 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 572479005820 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 572479005821 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 572479005822 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 572479005823 DNA binding site [nucleotide binding] 572479005824 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 572479005825 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 572479005826 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 572479005827 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 572479005828 RPB1 interaction site [polypeptide binding]; other site 572479005829 RPB10 interaction site [polypeptide binding]; other site 572479005830 RPB11 interaction site [polypeptide binding]; other site 572479005831 RPB3 interaction site [polypeptide binding]; other site 572479005832 RPB12 interaction site [polypeptide binding]; other site 572479005833 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 572479005834 L11 interface [polypeptide binding]; other site 572479005835 putative EF-Tu interaction site [polypeptide binding]; other site 572479005836 putative EF-G interaction site [polypeptide binding]; other site 572479005837 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 572479005838 23S rRNA interface [nucleotide binding]; other site 572479005839 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 572479005840 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 572479005841 mRNA/rRNA interface [nucleotide binding]; other site 572479005842 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 572479005843 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 572479005844 23S rRNA interface [nucleotide binding]; other site 572479005845 L7/L12 interface [polypeptide binding]; other site 572479005846 putative thiostrepton binding site; other site 572479005847 L25 interface [polypeptide binding]; other site 572479005848 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 572479005849 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 572479005850 putative homodimer interface [polypeptide binding]; other site 572479005851 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 572479005852 heterodimer interface [polypeptide binding]; other site 572479005853 homodimer interface [polypeptide binding]; other site 572479005854 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 572479005855 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 572479005856 elongation factor Tu; Reviewed; Region: PRK00049 572479005857 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 572479005858 G1 box; other site 572479005859 GEF interaction site [polypeptide binding]; other site 572479005860 GTP/Mg2+ binding site [chemical binding]; other site 572479005861 Switch I region; other site 572479005862 G2 box; other site 572479005863 G3 box; other site 572479005864 Switch II region; other site 572479005865 G4 box; other site 572479005866 G5 box; other site 572479005867 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 572479005868 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 572479005869 Antibiotic Binding Site [chemical binding]; other site 572479005870 RNA polymerase factor sigma-70; Validated; Region: PRK08295 572479005871 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572479005872 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 572479005873 DNA binding residues [nucleotide binding] 572479005874 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 572479005875 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 572479005876 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 572479005877 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 572479005878 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 572479005879 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 572479005880 active site 572479005881 HIGH motif; other site 572479005882 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 572479005883 KMSKS motif; other site 572479005884 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572479005885 tRNA binding surface [nucleotide binding]; other site 572479005886 anticodon binding site; other site 572479005887 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 572479005888 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 572479005889 HIGH motif; other site 572479005890 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 572479005891 active site 572479005892 KMSKS motif; other site 572479005893 FOG: CBS domain [General function prediction only]; Region: COG0517 572479005894 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 572479005895 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 572479005896 hexamer interface [polypeptide binding]; other site 572479005897 RNA binding site [nucleotide binding]; other site 572479005898 Histidine-zinc binding site [chemical binding]; other site 572479005899 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 572479005900 homotrimer interaction site [polypeptide binding]; other site 572479005901 zinc binding site [ion binding]; other site 572479005902 CDP-binding sites; other site 572479005903 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 572479005904 substrate binding site; other site 572479005905 dimer interface; other site 572479005906 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 572479005907 putative active site [active] 572479005908 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 572479005909 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 572479005910 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 572479005911 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 572479005912 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 572479005913 DNA repair protein RadA; Provisional; Region: PRK11823 572479005914 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 572479005915 Walker A motif/ATP binding site; other site 572479005916 ATP binding site [chemical binding]; other site 572479005917 Walker B motif; other site 572479005918 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 572479005919 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 572479005920 Clp amino terminal domain; Region: Clp_N; pfam02861 572479005921 Clp amino terminal domain; Region: Clp_N; pfam02861 572479005922 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 572479005923 Walker A motif; other site 572479005924 ATP binding site [chemical binding]; other site 572479005925 Walker B motif; other site 572479005926 arginine finger; other site 572479005927 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 572479005928 Walker A motif; other site 572479005929 ATP binding site [chemical binding]; other site 572479005930 Walker B motif; other site 572479005931 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 572479005932 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 572479005933 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 572479005934 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 572479005935 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 572479005936 dimer interface [polypeptide binding]; other site 572479005937 putative anticodon binding site; other site 572479005938 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 572479005939 motif 1; other site 572479005940 active site 572479005941 motif 2; other site 572479005942 motif 3; other site 572479005943 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 572479005944 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 572479005945 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 572479005946 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 572479005947 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 572479005948 FMN binding site [chemical binding]; other site 572479005949 active site 572479005950 catalytic residues [active] 572479005951 substrate binding site [chemical binding]; other site 572479005952 pantothenate kinase; Reviewed; Region: PRK13318 572479005953 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 572479005954 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 572479005955 FMN binding site [chemical binding]; other site 572479005956 substrate binding site [chemical binding]; other site 572479005957 putative catalytic residue [active] 572479005958 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 572479005959 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 572479005960 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 572479005961 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 572479005962 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 572479005963 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 572479005964 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 572479005965 Potassium binding sites [ion binding]; other site 572479005966 Cesium cation binding sites [ion binding]; other site 572479005967 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 572479005968 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 572479005969 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 572479005970 Walker A/P-loop; other site 572479005971 ATP binding site [chemical binding]; other site 572479005972 Q-loop/lid; other site 572479005973 ABC transporter signature motif; other site 572479005974 Walker B; other site 572479005975 D-loop; other site 572479005976 H-loop/switch region; other site 572479005977 FtsH Extracellular; Region: FtsH_ext; pfam06480 572479005978 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 572479005979 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 572479005980 Walker A motif; other site 572479005981 ATP binding site [chemical binding]; other site 572479005982 Walker B motif; other site 572479005983 arginine finger; other site 572479005984 Peptidase family M41; Region: Peptidase_M41; pfam01434 572479005985 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 572479005986 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479005987 active site 572479005988 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 572479005989 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 572479005990 Ligand Binding Site [chemical binding]; other site 572479005991 TilS substrate C-terminal domain; Region: TilS_C; smart00977 572479005992 exopolyphosphatase; Region: exo_poly_only; TIGR03706 572479005993 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 572479005994 Protein of unknown function (DUF501); Region: DUF501; pfam04417 572479005995 hypothetical protein; Provisional; Region: PRK08582 572479005996 S1_RPS1_repeat_hs4: 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_hs4; cd05692 572479005997 RNA binding site [nucleotide binding]; other site 572479005998 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 572479005999 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 572479006000 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 572479006001 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 572479006002 RNA binding site [nucleotide binding]; other site 572479006003 Septum formation initiator; Region: DivIC; pfam04977 572479006004 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 572479006005 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 572479006006 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 572479006007 Walker A/P-loop; other site 572479006008 ATP binding site [chemical binding]; other site 572479006009 Q-loop/lid; other site 572479006010 ABC transporter signature motif; other site 572479006011 Walker B; other site 572479006012 D-loop; other site 572479006013 H-loop/switch region; other site 572479006014 TOBE domain; Region: TOBE; pfam03459 572479006015 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572479006016 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572479006017 DNA binding site [nucleotide binding] 572479006018 domain linker motif; other site 572479006019 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 572479006020 dimerization interface [polypeptide binding]; other site 572479006021 ligand binding site [chemical binding]; other site 572479006022 beta-phosphoglucomutase; Region: bPGM; TIGR01990 572479006023 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 572479006024 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 572479006025 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 572479006026 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 572479006027 Walker A/P-loop; other site 572479006028 ATP binding site [chemical binding]; other site 572479006029 Q-loop/lid; other site 572479006030 ABC transporter signature motif; other site 572479006031 Walker B; other site 572479006032 D-loop; other site 572479006033 H-loop/switch region; other site 572479006034 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 572479006035 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 572479006036 ABC-ATPase subunit interface; other site 572479006037 dimer interface [polypeptide binding]; other site 572479006038 putative PBP binding regions; other site 572479006039 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 572479006040 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 572479006041 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 572479006042 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 572479006043 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 572479006044 homodimer interface [polypeptide binding]; other site 572479006045 metal binding site [ion binding]; metal-binding site 572479006046 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 572479006047 homodimer interface [polypeptide binding]; other site 572479006048 active site 572479006049 putative chemical substrate binding site [chemical binding]; other site 572479006050 metal binding site [ion binding]; metal-binding site 572479006051 stage V sporulation protein B; Region: spore_V_B; TIGR02900 572479006052 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 572479006053 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 572479006054 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 572479006055 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 572479006056 ATP binding site [chemical binding]; other site 572479006057 putative Mg++ binding site [ion binding]; other site 572479006058 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 572479006059 nucleotide binding region [chemical binding]; other site 572479006060 ATP-binding site [chemical binding]; other site 572479006061 TRCF domain; Region: TRCF; pfam03461 572479006062 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 572479006063 putative active site [active] 572479006064 catalytic residue [active] 572479006065 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 572479006066 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 572479006067 5S rRNA interface [nucleotide binding]; other site 572479006068 CTC domain interface [polypeptide binding]; other site 572479006069 L16 interface [polypeptide binding]; other site 572479006070 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 572479006071 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 572479006072 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479006073 active site 572479006074 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 572479006075 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 572479006076 Substrate binding site; other site 572479006077 Mg++ binding site; other site 572479006078 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 572479006079 active site 572479006080 substrate binding site [chemical binding]; other site 572479006081 CoA binding site [chemical binding]; other site 572479006082 SpoVG; Region: SpoVG; pfam04026 572479006083 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 572479006084 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 572479006085 dimerization interface [polypeptide binding]; other site 572479006086 putative ATP binding site [chemical binding]; other site 572479006087 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 572479006088 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 572479006089 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 572479006090 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 572479006091 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 572479006092 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 572479006093 DNA binding residues [nucleotide binding] 572479006094 putative dimer interface [polypeptide binding]; other site 572479006095 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 572479006096 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 572479006097 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 572479006098 BioY family; Region: BioY; pfam02632 572479006099 PspC domain; Region: PspC; pfam04024 572479006100 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572479006101 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572479006102 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 572479006103 Walker A/P-loop; other site 572479006104 ATP binding site [chemical binding]; other site 572479006105 Q-loop/lid; other site 572479006106 ABC transporter signature motif; other site 572479006107 Walker B; other site 572479006108 D-loop; other site 572479006109 H-loop/switch region; other site 572479006110 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 572479006111 PhoU domain; Region: PhoU; pfam01895 572479006112 PhoU domain; Region: PhoU; pfam01895 572479006113 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 572479006114 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 572479006115 Walker A/P-loop; other site 572479006116 ATP binding site [chemical binding]; other site 572479006117 Q-loop/lid; other site 572479006118 ABC transporter signature motif; other site 572479006119 Walker B; other site 572479006120 D-loop; other site 572479006121 H-loop/switch region; other site 572479006122 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 572479006123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006124 dimer interface [polypeptide binding]; other site 572479006125 conserved gate region; other site 572479006126 putative PBP binding loops; other site 572479006127 ABC-ATPase subunit interface; other site 572479006128 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 572479006129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006130 dimer interface [polypeptide binding]; other site 572479006131 conserved gate region; other site 572479006132 putative PBP binding loops; other site 572479006133 ABC-ATPase subunit interface; other site 572479006134 PBP superfamily domain; Region: PBP_like_2; cl17296 572479006135 Protein of unknown function (DUF964); Region: DUF964; pfam06133 572479006136 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 572479006137 Predicted permeases [General function prediction only]; Region: COG0701 572479006138 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 572479006139 dimerization interface [polypeptide binding]; other site 572479006140 putative DNA binding site [nucleotide binding]; other site 572479006141 putative Zn2+ binding site [ion binding]; other site 572479006142 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 572479006143 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 572479006144 catalytic triad [active] 572479006145 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 572479006146 putative DNA binding site [nucleotide binding]; other site 572479006147 putative Zn2+ binding site [ion binding]; other site 572479006148 Protein of unknown function (DUF964); Region: DUF964; pfam06133 572479006149 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 572479006150 dimerization interface [polypeptide binding]; other site 572479006151 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 572479006152 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 572479006153 putative active site [active] 572479006154 heme pocket [chemical binding]; other site 572479006155 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 572479006156 dimer interface [polypeptide binding]; other site 572479006157 phosphorylation site [posttranslational modification] 572479006158 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 572479006159 ATP binding site [chemical binding]; other site 572479006160 Mg2+ binding site [ion binding]; other site 572479006161 G-X-G motif; other site 572479006162 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572479006163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479006164 active site 572479006165 phosphorylation site [posttranslational modification] 572479006166 intermolecular recognition site; other site 572479006167 dimerization interface [polypeptide binding]; other site 572479006168 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 572479006169 DNA binding site [nucleotide binding] 572479006170 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 572479006171 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 572479006172 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 572479006173 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 572479006174 PhoU domain; Region: PhoU; pfam01895 572479006175 PhoU domain; Region: PhoU; pfam01895 572479006176 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 572479006177 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 572479006178 4Fe-4S binding domain; Region: Fer4; pfam00037 572479006179 4Fe-4S binding domain; Region: Fer4_6; pfam12837 572479006180 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572479006181 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 572479006182 dimer interface [polypeptide binding]; other site 572479006183 [2Fe-2S] cluster binding site [ion binding]; other site 572479006184 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 572479006185 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 572479006186 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 572479006187 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 572479006188 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 572479006189 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 572479006190 active site 572479006191 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 572479006192 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 572479006193 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572479006194 catalytic residue [active] 572479006195 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 572479006196 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 572479006197 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 572479006198 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 572479006199 catalytic residues [active] 572479006200 dimer interface [polypeptide binding]; other site 572479006201 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572479006202 MarR family; Region: MarR; pfam01047 572479006203 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 572479006204 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 572479006205 active site 572479006206 motif I; other site 572479006207 motif II; other site 572479006208 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 572479006209 EamA-like transporter family; Region: EamA; cl17759 572479006210 EamA-like transporter family; Region: EamA; pfam00892 572479006211 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 572479006212 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 572479006213 trimerization site [polypeptide binding]; other site 572479006214 active site 572479006215 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 572479006216 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 572479006217 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572479006218 catalytic residue [active] 572479006219 FeS assembly protein SufD; Region: sufD; TIGR01981 572479006220 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 572479006221 FeS assembly protein SufB; Region: sufB; TIGR01980 572479006222 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 572479006223 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 572479006224 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 572479006225 Walker A/P-loop; other site 572479006226 ATP binding site [chemical binding]; other site 572479006227 Q-loop/lid; other site 572479006228 ABC transporter signature motif; other site 572479006229 Walker B; other site 572479006230 D-loop; other site 572479006231 H-loop/switch region; other site 572479006232 Domain of unknown function DUF20; Region: UPF0118; pfam01594 572479006233 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 572479006234 Late competence development protein ComFB; Region: ComFB; pfam10719 572479006235 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 572479006236 carboxyltransferase (CT) interaction site; other site 572479006237 biotinylation site [posttranslational modification]; other site 572479006238 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 572479006239 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 572479006240 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 572479006241 AAA domain; Region: AAA_17; cl17253 572479006242 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 572479006243 EDD domain protein, DegV family; Region: DegV; TIGR00762 572479006244 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 572479006245 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 572479006246 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 572479006247 Short C-terminal domain; Region: SHOCT; pfam09851 572479006248 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 572479006249 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 572479006250 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 572479006251 dimerization interface [polypeptide binding]; other site 572479006252 ATP binding site [chemical binding]; other site 572479006253 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 572479006254 dimerization interface [polypeptide binding]; other site 572479006255 ATP binding site [chemical binding]; other site 572479006256 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 572479006257 putative active site [active] 572479006258 catalytic triad [active] 572479006259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572479006260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572479006261 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 572479006262 dimerization interface [polypeptide binding]; other site 572479006263 DRTGG domain; Region: DRTGG; pfam07085 572479006264 phosphopentomutase; Provisional; Region: PRK05362 572479006265 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 572479006266 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 572479006267 ParB-like nuclease domain; Region: ParB; smart00470 572479006268 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 572479006269 FAD binding domain; Region: FAD_binding_4; pfam01565 572479006270 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 572479006271 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 572479006272 GIY-YIG motif/motif A; other site 572479006273 putative active site [active] 572479006274 putative metal binding site [ion binding]; other site 572479006275 Uncharacterized conserved protein [Function unknown]; Region: COG1633 572479006276 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 572479006277 diiron binding motif [ion binding]; other site 572479006278 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572479006279 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572479006280 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 572479006281 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 572479006282 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 572479006283 active site 572479006284 nucleophile elbow; other site 572479006285 S-layer homology domain; Region: SLH; pfam00395 572479006286 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 572479006287 Protein export membrane protein; Region: SecD_SecF; cl14618 572479006288 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 572479006289 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572479006290 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 572479006291 HlyD family secretion protein; Region: HlyD_3; pfam13437 572479006292 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572479006293 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572479006294 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572479006295 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 572479006296 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 572479006297 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 572479006298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006299 dimer interface [polypeptide binding]; other site 572479006300 conserved gate region; other site 572479006301 ABC-ATPase subunit interface; other site 572479006302 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 572479006303 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 572479006304 Walker A/P-loop; other site 572479006305 ATP binding site [chemical binding]; other site 572479006306 Q-loop/lid; other site 572479006307 ABC transporter signature motif; other site 572479006308 Walker B; other site 572479006309 D-loop; other site 572479006310 H-loop/switch region; other site 572479006311 NIL domain; Region: NIL; pfam09383 572479006312 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 572479006313 Part of AAA domain; Region: AAA_19; pfam13245 572479006314 Family description; Region: UvrD_C_2; pfam13538 572479006315 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 572479006316 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 572479006317 active site 572479006318 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 572479006319 Uncharacterized conserved protein [Function unknown]; Region: COG1434 572479006320 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 572479006321 putative active site [active] 572479006322 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 572479006323 active site 572479006324 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 572479006325 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 572479006326 active site residue [active] 572479006327 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 572479006328 active site residue [active] 572479006329 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 572479006330 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 572479006331 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572479006332 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006333 dimer interface [polypeptide binding]; other site 572479006334 conserved gate region; other site 572479006335 putative PBP binding loops; other site 572479006336 ABC-ATPase subunit interface; other site 572479006337 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572479006338 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 572479006339 Walker A/P-loop; other site 572479006340 ATP binding site [chemical binding]; other site 572479006341 Q-loop/lid; other site 572479006342 ABC transporter signature motif; other site 572479006343 Walker B; other site 572479006344 D-loop; other site 572479006345 H-loop/switch region; other site 572479006346 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572479006347 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006348 dimer interface [polypeptide binding]; other site 572479006349 conserved gate region; other site 572479006350 putative PBP binding loops; other site 572479006351 ABC-ATPase subunit interface; other site 572479006352 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 572479006353 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572479006354 substrate binding pocket [chemical binding]; other site 572479006355 membrane-bound complex binding site; other site 572479006356 hinge residues; other site 572479006357 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 572479006358 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 572479006359 catalytic residue [active] 572479006360 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 572479006361 catalytic residues [active] 572479006362 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479006363 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479006364 peroxiredoxin; Region: AhpC; TIGR03137 572479006365 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 572479006366 dimer interface [polypeptide binding]; other site 572479006367 decamer (pentamer of dimers) interface [polypeptide binding]; other site 572479006368 catalytic triad [active] 572479006369 peroxidatic and resolving cysteines [active] 572479006370 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572479006371 Peptidase family M23; Region: Peptidase_M23; pfam01551 572479006372 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 572479006373 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 572479006374 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 572479006375 amino acid carrier protein; Region: agcS; TIGR00835 572479006376 glutaminase A; Region: Gln_ase; TIGR03814 572479006377 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 572479006378 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 572479006379 Fumarase C-terminus; Region: Fumerase_C; cl00795 572479006380 fumarate hydratase; Provisional; Region: PRK06246 572479006381 PAS domain S-box; Region: sensory_box; TIGR00229 572479006382 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 572479006383 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 572479006384 Walker A motif; other site 572479006385 ATP binding site [chemical binding]; other site 572479006386 Walker B motif; other site 572479006387 arginine finger; other site 572479006388 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 572479006389 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 572479006390 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 572479006391 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 572479006392 dimer interface [polypeptide binding]; other site 572479006393 active site 572479006394 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 572479006395 substrate binding site [chemical binding]; other site 572479006396 B12 cofactor binding site [chemical binding]; other site 572479006397 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 572479006398 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 572479006399 MutL protein; Region: MutL; pfam13941 572479006400 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 572479006401 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 572479006402 B12 binding site [chemical binding]; other site 572479006403 heterodimer interface [polypeptide binding]; other site 572479006404 cobalt ligand [ion binding]; other site 572479006405 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 572479006406 LPP20 lipoprotein; Region: LPP20; cl15824 572479006407 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 572479006408 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 572479006409 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 572479006410 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479006411 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572479006412 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572479006413 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 572479006414 TM-ABC transporter signature motif; other site 572479006415 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572479006416 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 572479006417 TM-ABC transporter signature motif; other site 572479006418 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 572479006419 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 572479006420 Walker A/P-loop; other site 572479006421 ATP binding site [chemical binding]; other site 572479006422 Q-loop/lid; other site 572479006423 ABC transporter signature motif; other site 572479006424 Walker B; other site 572479006425 D-loop; other site 572479006426 H-loop/switch region; other site 572479006427 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 572479006428 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 572479006429 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 572479006430 ligand binding site [chemical binding]; other site 572479006431 flagellar operon protein TIGR03826; Region: YvyF 572479006432 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 572479006433 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 572479006434 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 572479006435 ligand binding site; other site 572479006436 tetramer interface; other site 572479006437 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 572479006438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 572479006439 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 572479006440 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 572479006441 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 572479006442 FlaG protein; Region: FlaG; pfam03646 572479006443 flagellin; Reviewed; Region: PRK08869 572479006444 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 572479006445 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 572479006446 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 572479006447 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 572479006448 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 572479006449 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 572479006450 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572479006451 FlgN protein; Region: FlgN; pfam05130 572479006452 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 572479006453 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 572479006454 dimerization interface [polypeptide binding]; other site 572479006455 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479006456 dimer interface [polypeptide binding]; other site 572479006457 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479006458 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479006459 dimer interface [polypeptide binding]; other site 572479006460 putative CheW interface [polypeptide binding]; other site 572479006461 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 572479006462 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 572479006463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479006464 active site 572479006465 phosphorylation site [posttranslational modification] 572479006466 intermolecular recognition site; other site 572479006467 dimerization interface [polypeptide binding]; other site 572479006468 Cache domain; Region: Cache_1; pfam02743 572479006469 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 572479006470 dimerization interface [polypeptide binding]; other site 572479006471 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479006472 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479006473 metal binding site [ion binding]; metal-binding site 572479006474 active site 572479006475 I-site; other site 572479006476 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 572479006477 Transcriptional regulators [Transcription]; Region: GntR; COG1802 572479006478 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572479006479 DNA-binding site [nucleotide binding]; DNA binding site 572479006480 FCD domain; Region: FCD; pfam07729 572479006481 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 572479006482 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 572479006483 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 572479006484 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 572479006485 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 572479006486 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 572479006487 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479006488 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006489 dimer interface [polypeptide binding]; other site 572479006490 conserved gate region; other site 572479006491 putative PBP binding loops; other site 572479006492 ABC-ATPase subunit interface; other site 572479006493 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006494 dimer interface [polypeptide binding]; other site 572479006495 conserved gate region; other site 572479006496 putative PBP binding loops; other site 572479006497 ABC-ATPase subunit interface; other site 572479006498 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572479006499 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479006500 flagellar operon protein TIGR03826; Region: YvyF 572479006501 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 572479006502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479006503 active site 572479006504 phosphorylation site [posttranslational modification] 572479006505 intermolecular recognition site; other site 572479006506 dimerization interface [polypeptide binding]; other site 572479006507 CheB methylesterase; Region: CheB_methylest; pfam01339 572479006508 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 572479006509 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 572479006510 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 572479006511 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 572479006512 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 572479006513 GIY-YIG motif/motif A; other site 572479006514 active site 572479006515 catalytic site [active] 572479006516 putative DNA binding site [nucleotide binding]; other site 572479006517 metal binding site [ion binding]; metal-binding site 572479006518 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 572479006519 Transposase IS200 like; Region: Y1_Tnp; pfam01797 572479006520 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 572479006521 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 572479006522 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 572479006523 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 572479006524 excinuclease ABC subunit B; Provisional; Region: PRK05298 572479006525 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 572479006526 ATP binding site [chemical binding]; other site 572479006527 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 572479006528 nucleotide binding region [chemical binding]; other site 572479006529 ATP-binding site [chemical binding]; other site 572479006530 Ultra-violet resistance protein B; Region: UvrB; pfam12344 572479006531 UvrB/uvrC motif; Region: UVR; pfam02151 572479006532 PRC-barrel domain; Region: PRC; pfam05239 572479006533 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479006534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006535 dimer interface [polypeptide binding]; other site 572479006536 conserved gate region; other site 572479006537 putative PBP binding loops; other site 572479006538 ABC-ATPase subunit interface; other site 572479006539 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479006540 dimer interface [polypeptide binding]; other site 572479006541 conserved gate region; other site 572479006542 putative PBP binding loops; other site 572479006543 ABC-ATPase subunit interface; other site 572479006544 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572479006545 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 572479006546 Cache domain; Region: Cache_1; pfam02743 572479006547 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 572479006548 dimerization interface [polypeptide binding]; other site 572479006549 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479006550 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479006551 dimer interface [polypeptide binding]; other site 572479006552 putative CheW interface [polypeptide binding]; other site 572479006553 YheO-like PAS domain; Region: PAS_6; pfam08348 572479006554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 572479006555 HTH domain; Region: HTH_22; pfam13309 572479006556 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 572479006557 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 572479006558 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 572479006559 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 572479006560 tyrosine phenol-lyase; Provisional; Region: PRK13237 572479006561 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 572479006562 substrate binding site [chemical binding]; other site 572479006563 tetramer interface [polypeptide binding]; other site 572479006564 catalytic residue [active] 572479006565 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 572479006566 homotrimer interaction site [polypeptide binding]; other site 572479006567 putative active site [active] 572479006568 Cache domain; Region: Cache_1; pfam02743 572479006569 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 572479006570 dimerization interface [polypeptide binding]; other site 572479006571 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479006572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479006573 dimer interface [polypeptide binding]; other site 572479006574 putative CheW interface [polypeptide binding]; other site 572479006575 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 572479006576 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 572479006577 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 572479006578 protein binding site [polypeptide binding]; other site 572479006579 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 572479006580 Catalytic dyad [active] 572479006581 Uncharacterized conserved protein [Function unknown]; Region: COG1284 572479006582 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 572479006583 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 572479006584 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 572479006585 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 572479006586 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 572479006587 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 572479006588 peptide chain release factor 2; Validated; Region: prfB; PRK00578 572479006589 This domain is found in peptide chain release factors; Region: PCRF; smart00937 572479006590 RF-1 domain; Region: RF-1; pfam00472 572479006591 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 572479006592 DEAD/DEAH box helicase; Region: DEAD; pfam00270 572479006593 ATP binding site [chemical binding]; other site 572479006594 putative Mg++ binding site [ion binding]; other site 572479006595 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 572479006596 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 572479006597 30S subunit binding site; other site 572479006598 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 572479006599 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479006600 active site 572479006601 RNA polymerase factor sigma-70; Validated; Region: PRK08295 572479006602 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572479006603 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 572479006604 DNA binding residues [nucleotide binding] 572479006605 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 572479006606 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 572479006607 active site 572479006608 nucleotide binding site [chemical binding]; other site 572479006609 HIGH motif; other site 572479006610 KMSKS motif; other site 572479006611 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 572479006612 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 572479006613 substrate binding site [chemical binding]; other site 572479006614 ATP binding site [chemical binding]; other site 572479006615 Sporulation related domain; Region: SPOR; pfam05036 572479006616 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 572479006617 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]; Region: COG1031 572479006618 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 572479006619 active site 572479006620 tetramer interface; other site 572479006621 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 572479006622 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 572479006623 active site 572479006624 substrate binding site [chemical binding]; other site 572479006625 metal binding site [ion binding]; metal-binding site 572479006626 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 572479006627 haemagglutination activity domain; Region: Haemagg_act; smart00912 572479006628 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 572479006629 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 572479006630 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 572479006631 Surface antigen; Region: Bac_surface_Ag; pfam01103 572479006632 S-layer homology domain; Region: SLH; pfam00395 572479006633 Autotransporter beta-domain; Region: Autotransporter; cl17461 572479006634 S-layer homology domain; Region: SLH; pfam00395 572479006635 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 572479006636 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 572479006637 Predicted permeases [General function prediction only]; Region: COG0795 572479006638 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 572479006639 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 572479006640 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 572479006641 Walker A/P-loop; other site 572479006642 ATP binding site [chemical binding]; other site 572479006643 Q-loop/lid; other site 572479006644 ABC transporter signature motif; other site 572479006645 Walker B; other site 572479006646 D-loop; other site 572479006647 H-loop/switch region; other site 572479006648 OstA-like protein; Region: OstA; cl00844 572479006649 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 572479006650 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 572479006651 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 572479006652 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 572479006653 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 572479006654 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 572479006655 active site 572479006656 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 572479006657 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 572479006658 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 572479006659 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 572479006660 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 572479006661 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 572479006662 trimer interface [polypeptide binding]; other site 572479006663 active site 572479006664 UDP-GlcNAc binding site [chemical binding]; other site 572479006665 lipid binding site [chemical binding]; lipid-binding site 572479006666 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 572479006667 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 572479006668 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 572479006669 Surface antigen; Region: Bac_surface_Ag; pfam01103 572479006670 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 572479006671 Family of unknown function (DUF490); Region: DUF490; pfam04357 572479006672 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 572479006673 rod shape-determining protein MreB; Provisional; Region: PRK13927 572479006674 MreB and similar proteins; Region: MreB_like; cd10225 572479006675 nucleotide binding site [chemical binding]; other site 572479006676 Mg binding site [ion binding]; other site 572479006677 putative protofilament interaction site [polypeptide binding]; other site 572479006678 RodZ interaction site [polypeptide binding]; other site 572479006679 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 572479006680 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 572479006681 FOG: CBS domain [General function prediction only]; Region: COG0517 572479006682 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 572479006683 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 572479006684 substrate binding site [chemical binding]; other site 572479006685 ATP binding site [chemical binding]; other site 572479006686 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 572479006687 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 572479006688 hinge; other site 572479006689 active site 572479006690 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 572479006691 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 572479006692 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 572479006693 gamma subunit interface [polypeptide binding]; other site 572479006694 epsilon subunit interface [polypeptide binding]; other site 572479006695 LBP interface [polypeptide binding]; other site 572479006696 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 572479006697 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 572479006698 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 572479006699 alpha subunit interaction interface [polypeptide binding]; other site 572479006700 Walker A motif; other site 572479006701 ATP binding site [chemical binding]; other site 572479006702 Walker B motif; other site 572479006703 inhibitor binding site; inhibition site 572479006704 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572479006705 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 572479006706 core domain interface [polypeptide binding]; other site 572479006707 delta subunit interface [polypeptide binding]; other site 572479006708 epsilon subunit interface [polypeptide binding]; other site 572479006709 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 572479006710 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 572479006711 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 572479006712 beta subunit interaction interface [polypeptide binding]; other site 572479006713 Walker A motif; other site 572479006714 ATP binding site [chemical binding]; other site 572479006715 Walker B motif; other site 572479006716 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572479006717 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 572479006718 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 572479006719 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 572479006720 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 572479006721 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 572479006722 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 572479006723 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 572479006724 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 572479006725 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 572479006726 Mg++ binding site [ion binding]; other site 572479006727 putative catalytic motif [active] 572479006728 substrate binding site [chemical binding]; other site 572479006729 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572479006730 active site 572479006731 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 572479006732 Low molecular weight phosphatase family; Region: LMWPc; cd00115 572479006733 active site 572479006734 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 572479006735 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 572479006736 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 572479006737 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 572479006738 S-adenosylmethionine binding site [chemical binding]; other site 572479006739 peptide chain release factor 1; Validated; Region: prfA; PRK00591 572479006740 This domain is found in peptide chain release factors; Region: PCRF; smart00937 572479006741 RF-1 domain; Region: RF-1; pfam00472 572479006742 thymidine kinase; Provisional; Region: PRK04296 572479006743 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 572479006744 transcription termination factor Rho; Provisional; Region: rho; PRK09376 572479006745 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 572479006746 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 572479006747 RNA binding site [nucleotide binding]; other site 572479006748 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 572479006749 multimer interface [polypeptide binding]; other site 572479006750 Walker A motif; other site 572479006751 ATP binding site [chemical binding]; other site 572479006752 Walker B motif; other site 572479006753 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 572479006754 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 572479006755 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 572479006756 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 572479006757 intersubunit interface [polypeptide binding]; other site 572479006758 active site 572479006759 zinc binding site [ion binding]; other site 572479006760 Na+ binding site [ion binding]; other site 572479006761 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 572479006762 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 572479006763 substrate binding site [chemical binding]; other site 572479006764 oxyanion hole (OAH) forming residues; other site 572479006765 trimer interface [polypeptide binding]; other site 572479006766 CTP synthetase; Validated; Region: pyrG; PRK05380 572479006767 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 572479006768 Catalytic site [active] 572479006769 active site 572479006770 UTP binding site [chemical binding]; other site 572479006771 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 572479006772 active site 572479006773 putative oxyanion hole; other site 572479006774 catalytic triad [active] 572479006775 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 572479006776 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 572479006777 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 572479006778 active site 572479006779 HIGH motif; other site 572479006780 KMSK motif region; other site 572479006781 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 572479006782 tRNA binding surface [nucleotide binding]; other site 572479006783 anticodon binding site; other site 572479006784 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 572479006785 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 572479006786 catalytic residues [active] 572479006787 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 572479006788 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572479006789 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 572479006790 catalytic residues [active] 572479006791 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 572479006792 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 572479006793 oligomer interface [polypeptide binding]; other site 572479006794 putative active site [active] 572479006795 metal binding site [ion binding]; metal-binding site 572479006796 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572479006797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572479006798 active site 572479006799 phosphorylation site [posttranslational modification] 572479006800 intermolecular recognition site; other site 572479006801 dimerization interface [polypeptide binding]; other site 572479006802 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 572479006803 DNA binding site [nucleotide binding] 572479006804 Transposase IS200 like; Region: Y1_Tnp; pfam01797 572479006805 SurA N-terminal domain; Region: SurA_N_3; cl07813 572479006806 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 572479006807 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 572479006808 Tetramer interface [polypeptide binding]; other site 572479006809 active site 572479006810 FMN-binding site [chemical binding]; other site 572479006811 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 572479006812 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 572479006813 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 572479006814 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 572479006815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479006816 homodimer interface [polypeptide binding]; other site 572479006817 catalytic residue [active] 572479006818 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 572479006819 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 572479006820 hinge; other site 572479006821 active site 572479006822 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 572479006823 Na binding site [ion binding]; other site 572479006824 Probable transposase; Region: OrfB_IS605; pfam01385 572479006825 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 572479006826 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 572479006827 Transposase IS200 like; Region: Y1_Tnp; pfam01797 572479006828 OsmC-like protein; Region: OsmC; pfam02566 572479006829 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572479006830 Methyltransferase domain; Region: Methyltransf_11; pfam08241 572479006831 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 572479006832 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 572479006833 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 572479006834 RNA binding surface [nucleotide binding]; other site 572479006835 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 572479006836 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 572479006837 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 572479006838 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 572479006839 CoA binding domain; Region: CoA_binding; smart00881 572479006840 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 572479006841 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 572479006842 active site 572479006843 HIGH motif; other site 572479006844 KMSKS motif; other site 572479006845 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 572479006846 tRNA binding surface [nucleotide binding]; other site 572479006847 anticodon binding site; other site 572479006848 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 572479006849 dimer interface [polypeptide binding]; other site 572479006850 putative tRNA-binding site [nucleotide binding]; other site 572479006851 Predicted methyltransferases [General function prediction only]; Region: COG0313 572479006852 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 572479006853 putative SAM binding site [chemical binding]; other site 572479006854 putative homodimer interface [polypeptide binding]; other site 572479006855 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 572479006856 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 572479006857 S-adenosylmethionine binding site [chemical binding]; other site 572479006858 Protein of unknown function (DUF972); Region: DUF972; pfam06156 572479006859 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 572479006860 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 572479006861 DNA polymerase III subunit delta'; Validated; Region: PRK08485 572479006862 Protein of unknown function (DUF970); Region: DUF970; cl17525 572479006863 thymidylate kinase; Validated; Region: tmk; PRK00698 572479006864 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 572479006865 TMP-binding site; other site 572479006866 ATP-binding site [chemical binding]; other site 572479006867 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 572479006868 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572479006869 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572479006870 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 572479006871 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 572479006872 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 572479006873 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 572479006874 active site 572479006875 recombination protein RecR; Reviewed; Region: recR; PRK00076 572479006876 RecR protein; Region: RecR; pfam02132 572479006877 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 572479006878 putative active site [active] 572479006879 putative metal-binding site [ion binding]; other site 572479006880 tetramer interface [polypeptide binding]; other site 572479006881 hypothetical protein; Validated; Region: PRK00153 572479006882 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 572479006883 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 572479006884 Walker A motif; other site 572479006885 ATP binding site [chemical binding]; other site 572479006886 Walker B motif; other site 572479006887 arginine finger; other site 572479006888 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 572479006889 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 572479006890 nucleoside/Zn binding site; other site 572479006891 dimer interface [polypeptide binding]; other site 572479006892 catalytic motif [active] 572479006893 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 572479006894 Int/Topo IB signature motif; other site 572479006895 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 572479006896 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 572479006897 active site 572479006898 Cache domain; Region: Cache_1; pfam02743 572479006899 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 572479006900 dimerization interface [polypeptide binding]; other site 572479006901 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572479006902 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572479006903 dimer interface [polypeptide binding]; other site 572479006904 putative CheW interface [polypeptide binding]; other site 572479006905 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 572479006906 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 572479006907 active site 572479006908 SdpI/YhfL protein family; Region: SdpI; pfam13630 572479006909 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 572479006910 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 572479006911 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 572479006912 ATP binding site [chemical binding]; other site 572479006913 putative Mg++ binding site [ion binding]; other site 572479006914 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 572479006915 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572479006916 HsdM N-terminal domain; Region: HsdM_N; pfam12161 572479006917 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 572479006918 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 572479006919 MPN+ (JAMM) motif; other site 572479006920 Zinc-binding site [ion binding]; other site 572479006921 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 572479006922 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 572479006923 active site 572479006924 FMN binding site [chemical binding]; other site 572479006925 substrate binding site [chemical binding]; other site 572479006926 putative catalytic residue [active] 572479006927 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 572479006928 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 572479006929 dimer interface [polypeptide binding]; other site 572479006930 active site 572479006931 metal binding site [ion binding]; metal-binding site 572479006932 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 572479006933 putative FMN binding site [chemical binding]; other site 572479006934 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572479006935 MarR family; Region: MarR_2; pfam12802 572479006936 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572479006937 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572479006938 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 572479006939 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 572479006940 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 572479006941 pentamer interface [polypeptide binding]; other site 572479006942 dodecaamer interface [polypeptide binding]; other site 572479006943 YvrJ protein family; Region: YvrJ; pfam12841 572479006944 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 572479006945 putative active site [active] 572479006946 PAS fold; Region: PAS_3; pfam08447 572479006947 heme pocket [chemical binding]; other site 572479006948 PAS fold; Region: PAS_4; pfam08448 572479006949 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479006950 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479006951 metal binding site [ion binding]; metal-binding site 572479006952 active site 572479006953 I-site; other site 572479006954 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 572479006955 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 572479006956 PAS domain; Region: PAS; smart00091 572479006957 PAS domain; Region: PAS_9; pfam13426 572479006958 putative active site [active] 572479006959 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 572479006960 PAS fold; Region: PAS_3; pfam08447 572479006961 putative active site [active] 572479006962 heme pocket [chemical binding]; other site 572479006963 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572479006964 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572479006965 metal binding site [ion binding]; metal-binding site 572479006966 active site 572479006967 I-site; other site 572479006968 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572479006969 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572479006970 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572479006971 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 572479006972 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 572479006973 active site 572479006974 HIGH motif; other site 572479006975 dimer interface [polypeptide binding]; other site 572479006976 KMSKS motif; other site 572479006977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572479006978 Coenzyme A binding pocket [chemical binding]; other site 572479006979 Uncharacterized conserved protein [Function unknown]; Region: COG3538 572479006980 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 572479006981 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 572479006982 active site 572479006983 catalytic site [active] 572479006984 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 572479006985 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 572479006986 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 572479006987 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with...; Region: GH85_ENGase; cd06547 572479006988 putative active site [active] 572479006989 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 572479006990 Protein of unknown function, DUF624; Region: DUF624; cl02369 572479006991 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 572479006992 Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine...; Region: GH20_GcnA-like; cd06565 572479006993 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 572479006994 putative active site [active] 572479006995 Domain of unknown function (DUF377); Region: DUF377; pfam04041 572479006996 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 572479006997 active site 572479006998 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572479006999 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572479007000 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 572479007001 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572479007002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479007003 dimer interface [polypeptide binding]; other site 572479007004 conserved gate region; other site 572479007005 putative PBP binding loops; other site 572479007006 ABC-ATPase subunit interface; other site 572479007007 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 572479007008 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 572479007009 dimer interface [polypeptide binding]; other site 572479007010 conserved gate region; other site 572479007011 putative PBP binding loops; other site 572479007012 ABC-ATPase subunit interface; other site 572479007013 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572479007014 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572479007015 DNA binding site [nucleotide binding] 572479007016 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 572479007017 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572479007018 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572479007019 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 572479007020 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 572479007021 FMN binding site [chemical binding]; other site 572479007022 dimer interface [polypeptide binding]; other site 572479007023 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 572479007024 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 572479007025 putative active site [active] 572479007026 catalytic site [active] 572479007027 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 572479007028 putative active site [active] 572479007029 catalytic site [active] 572479007030 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572479007031 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572479007032 Zn2+ binding site [ion binding]; other site 572479007033 Mg2+ binding site [ion binding]; other site 572479007034 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 572479007035 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 572479007036 dimer interface [polypeptide binding]; other site 572479007037 PYR/PP interface [polypeptide binding]; other site 572479007038 TPP binding site [chemical binding]; other site 572479007039 substrate binding site [chemical binding]; other site 572479007040 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 572479007041 Domain of unknown function; Region: EKR; smart00890 572479007042 4Fe-4S binding domain; Region: Fer4_6; pfam12837 572479007043 4Fe-4S binding domain; Region: Fer4; pfam00037 572479007044 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 572479007045 TPP-binding site [chemical binding]; other site 572479007046 dimer interface [polypeptide binding]; other site 572479007047 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 572479007048 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 572479007049 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 572479007050 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 572479007051 Chain length determinant protein; Region: Wzz; pfam02706 572479007052 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 572479007053 Membrane protein of unknown function; Region: DUF360; pfam04020 572479007054 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 572479007055 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 572479007056 dimer interface [polypeptide binding]; other site 572479007057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572479007058 catalytic residue [active] 572479007059 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 572479007060 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 572479007061 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 572479007062 trimer interface [polypeptide binding]; other site 572479007063 active site 572479007064 substrate binding site [chemical binding]; other site 572479007065 CoA binding site [chemical binding]; other site 572479007066 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 572479007067 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 572479007068 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 572479007069 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 572479007070 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 572479007071 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 572479007072 GDP-binding site [chemical binding]; other site 572479007073 ACT binding site; other site 572479007074 IMP binding site; other site 572479007075 adenylosuccinate lyase; Provisional; Region: PRK07380 572479007076 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 572479007077 tetramer interface [polypeptide binding]; other site 572479007078 active site 572479007079 DNA replication protein DnaC; Validated; Region: PRK06835 572479007080 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 572479007081 Walker A motif; other site 572479007082 ATP binding site [chemical binding]; other site 572479007083 Walker B motif; other site 572479007084 arginine finger; other site 572479007085 replicative DNA helicase; Region: DnaB; TIGR00665 572479007086 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 572479007087 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 572479007088 Walker A motif; other site 572479007089 ATP binding site [chemical binding]; other site 572479007090 Walker B motif; other site 572479007091 DNA binding loops [nucleotide binding] 572479007092 PspC domain; Region: PspC; pfam04024 572479007093 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 572479007094 Ligand Binding Site [chemical binding]; other site 572479007095 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 572479007096 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 572479007097 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 572479007098 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 572479007099 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 572479007100 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 572479007101 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 572479007102 dimer interface [polypeptide binding]; other site 572479007103 ssDNA binding site [nucleotide binding]; other site 572479007104 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572479007105 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 572479007106 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 572479007107 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 572479007108 active site 572479007109 GTP-binding protein YchF; Reviewed; Region: PRK09601 572479007110 YchF GTPase; Region: YchF; cd01900 572479007111 G1 box; other site 572479007112 GTP/Mg2+ binding site [chemical binding]; other site 572479007113 Switch I region; other site 572479007114 G2 box; other site 572479007115 Switch II region; other site 572479007116 G3 box; other site 572479007117 G4 box; other site 572479007118 G5 box; other site 572479007119 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 572479007120 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 572479007121 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572479007122 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 572479007123 binding surface 572479007124 TPR motif; other site 572479007125 Tetratricopeptide repeat; Region: TPR_12; pfam13424 572479007126 Protein of unknown function (DUF554); Region: DUF554; pfam04474 572479007127 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 572479007128 ParB-like nuclease domain; Region: ParBc; pfam02195 572479007129 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 572479007130 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 572479007131 P-loop; other site 572479007132 Magnesium ion binding site [ion binding]; other site 572479007133 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 572479007134 Magnesium ion binding site [ion binding]; other site 572479007135 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 572479007136 ParB-like nuclease domain; Region: ParB; smart00470 572479007137 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 572479007138 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 572479007139 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 572479007140 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 572479007141 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 572479007142 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 572479007143 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 572479007144 trmE is a tRNA modification GTPase; Region: trmE; cd04164 572479007145 G1 box; other site 572479007146 GTP/Mg2+ binding site [chemical binding]; other site 572479007147 Switch I region; other site 572479007148 G2 box; other site 572479007149 Switch II region; other site 572479007150 G3 box; other site 572479007151 G4 box; other site 572479007152 G5 box; other site 572479007153 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 572479007154 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 572479007155 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 572479007156 G-X-X-G motif; other site 572479007157 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 572479007158 RxxxH motif; other site 572479007159 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 572479007160 Haemolytic domain; Region: Haemolytic; pfam01809 572479007161 ribonuclease P; Reviewed; Region: rnpA; PRK00499