-- dump date 20111121_015339 -- class Genbank::misc_feature -- table misc_feature_note -- id note 309801000001 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 309801000002 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 309801000003 Walker A motif; other site 309801000004 ATP binding site [chemical binding]; other site 309801000005 Walker B motif; other site 309801000006 arginine finger; other site 309801000007 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; cl00120 309801000008 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 309801000009 TPR motif; other site 309801000010 binding surface 309801000011 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 309801000012 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 309801000013 tetramer interface [polypeptide binding]; other site 309801000014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801000015 catalytic residue [active] 309801000016 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 contains two...; Region: OMP_decarboxylase_like; cd04725 309801000017 active site 309801000018 dimer interface [polypeptide binding]; other site 309801000019 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 309801000020 proposed catalytic triad [active] 309801000021 conserved cys residue [active] 309801000022 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309801000023 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 309801000024 Walker A/P-loop; other site 309801000025 ATP binding site [chemical binding]; other site 309801000026 Q-loop/lid; other site 309801000027 ABC transporter signature motif; other site 309801000028 Walker B; other site 309801000029 D-loop; other site 309801000030 H-loop/switch region; other site 309801000031 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 309801000032 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 309801000033 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 309801000034 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 309801000035 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 309801000036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000037 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 309801000038 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 309801000039 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 309801000040 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 309801000041 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 309801000042 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 309801000043 dimerization interface [polypeptide binding]; other site 309801000044 putative ATP binding site [chemical binding]; other site 309801000045 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 309801000046 predicted active site [active] 309801000047 catalytic triad [active] 309801000048 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 309801000049 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 309801000050 active site 309801000051 multimer interface [polypeptide binding]; other site 309801000052 LL-diaminopimelate aminotransferase; Region: DapC_direct; TIGR03540 309801000053 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 309801000054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801000055 homodimer interface [polypeptide binding]; other site 309801000056 catalytic residue [active] 309801000057 CRISPR repeat region, Tneap subtype 309801000058 CRISPR spacer 309801000059 CRISPR spacer 309801000060 CRISPR spacer 309801000061 CRISPR spacer 309801000062 CRISPR spacer 309801000063 CRISPR spacer 309801000064 CRISPR spacer 309801000065 CRISPR spacer 309801000066 CRISPR spacer 309801000067 CRISPR spacer 309801000068 CRISPR spacer 309801000069 CRISPR spacer 309801000070 CRISPR spacer 309801000071 CRISPR spacer 309801000072 CRISPR spacer 309801000073 CRISPR spacer 309801000074 CRISPR spacer 309801000075 CRISPR spacer 309801000076 CRISPR spacer 309801000077 CRISPR spacer 309801000078 CRISPR spacer 309801000079 CRISPR spacer 309801000080 CRISPR spacer 309801000081 CRISPR spacer 309801000082 CRISPR spacer 309801000083 CRISPR spacer 309801000084 CRISPR spacer 309801000085 CRISPR spacer 309801000086 CRISPR spacer 309801000087 CRISPR spacer 309801000088 CRISPR spacer 309801000089 CRISPR spacer 309801000090 CRISPR spacer 309801000091 CRISPR spacer 309801000092 CRISPR spacer 309801000093 CRISPR spacer 309801000094 CRISPR spacer 309801000095 CRISPR spacer 309801000096 CRISPR spacer 309801000097 CRISPR spacer 309801000098 CRISPR spacer 309801000099 CRISPR spacer 309801000100 CRISPR spacer 309801000101 CRISPR spacer 309801000102 CRISPR spacer 309801000103 CRISPR spacer 309801000104 CRISPR spacer 309801000105 CRISPR spacer 309801000106 CRISPR spacer 309801000107 CRISPR spacer 309801000108 CRISPR spacer 309801000109 CRISPR spacer 309801000110 CRISPR spacer 309801000111 CRISPR spacer 309801000112 CRISPR spacer 309801000113 CRISPR spacer 309801000114 CRISPR spacer 309801000115 CRISPR spacer 309801000116 CRISPR spacer 309801000117 CRISPR spacer 309801000118 CRISPR spacer 309801000119 CRISPR spacer 309801000120 CRISPR spacer 309801000121 CRISPR spacer 309801000122 CRISPR spacer 309801000123 CRISPR spacer 309801000124 CRISPR spacer 309801000125 CRISPR spacer 309801000126 CRISPR spacer 309801000127 CRISPR spacer 309801000128 CRISPR spacer 309801000129 CRISPR spacer 309801000130 CRISPR spacer 309801000131 CRISPR spacer 309801000132 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 309801000133 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801000134 active site 309801000135 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 309801000136 active site 309801000137 substrate binding site [chemical binding]; other site 309801000138 CoA binding site [chemical binding]; other site 309801000139 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 309801000140 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801000141 FOG: CBS domain [General function prediction only]; Region: COG0517 309801000142 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 309801000143 Transporter associated domain; Region: CorC_HlyC; cl08393 309801000144 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 309801000145 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 309801000146 methylenetetrahydromethanopterin reductase; Provisional; Region: PRK02271 309801000147 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 309801000148 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 309801000149 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309801000150 active site 309801000151 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 309801000152 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 309801000153 trimer interface [polypeptide binding]; other site 309801000154 putative metal binding site [ion binding]; other site 309801000155 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 309801000156 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 309801000157 substrate binding site [chemical binding]; other site 309801000158 oxyanion hole (OAH) forming residues; other site 309801000159 trimer interface [polypeptide binding]; other site 309801000160 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 309801000161 Ligand binding site [chemical binding]; other site 309801000162 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 309801000163 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 309801000164 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 309801000165 oxidoreductase; Provisional; Region: PRK10015 309801000166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000167 Colicin V production protein; Region: Colicin_V; cl00567 309801000168 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 309801000169 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 309801000170 PAS fold; Region: PAS_3; pfam08447 309801000171 putative active site [active] 309801000172 heme pocket [chemical binding]; other site 309801000173 PAS fold; Region: PAS_3; pfam08447 309801000174 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 309801000175 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 309801000176 PAS fold; Region: PAS_3; pfam08447 309801000177 putative active site [active] 309801000178 heme pocket [chemical binding]; other site 309801000179 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 309801000180 PAS fold; Region: PAS_3; pfam08447 309801000181 putative active site [active] 309801000182 heme pocket [chemical binding]; other site 309801000183 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 309801000184 PAS fold; Region: PAS_3; pfam08447 309801000185 putative active site [active] 309801000186 heme pocket [chemical binding]; other site 309801000187 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 309801000188 PAS fold; Region: PAS_3; pfam08447 309801000189 putative active site [active] 309801000190 heme pocket [chemical binding]; other site 309801000191 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 309801000192 PAS fold; Region: PAS_3; pfam08447 309801000193 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 309801000194 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 309801000195 PAS fold; Region: PAS_3; pfam08447 309801000196 putative active site [active] 309801000197 heme pocket [chemical binding]; other site 309801000198 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 309801000199 PAS fold; Region: PAS_3; pfam08447 309801000200 putative active site [active] 309801000201 heme pocket [chemical binding]; other site 309801000202 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 309801000203 PAS fold; Region: PAS_3; pfam08447 309801000204 putative active site [active] 309801000205 heme pocket [chemical binding]; other site 309801000206 GAF domain; Region: GAF; cl00853 309801000207 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 309801000208 metal binding site [ion binding]; metal-binding site 309801000209 active site 309801000210 I-site; other site 309801000211 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 309801000212 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 309801000213 active site 309801000214 NTP binding site [chemical binding]; other site 309801000215 metal binding triad [ion binding]; metal-binding site 309801000216 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 309801000217 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 309801000218 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 309801000219 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 309801000220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000221 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 309801000222 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 309801000223 DNA binding residues [nucleotide binding] 309801000224 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 309801000225 cell division protein MraZ; Reviewed; Region: PRK00326 309801000226 MraZ protein; Region: MraZ; pfam02381 309801000227 MraZ protein; Region: MraZ; pfam02381 309801000228 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; cl12011 309801000229 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 309801000230 Septum formation initiator; Region: DivIC; cl11433 309801000231 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 309801000232 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 309801000233 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 309801000234 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 309801000235 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 309801000236 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801000237 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309801000238 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 309801000239 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 309801000240 Mg++ binding site [ion binding]; other site 309801000241 putative catalytic motif [active] 309801000242 putative substrate binding site [chemical binding]; other site 309801000243 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 309801000244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000245 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801000246 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 309801000247 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 309801000248 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 309801000249 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801000250 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309801000251 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 309801000252 FAD binding domain; Region: FAD_binding_4; pfam01565 309801000253 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 309801000254 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 309801000255 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 309801000256 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801000257 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 309801000258 Cell division protein FtsQ; Region: FtsQ; pfam03799 309801000259 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 309801000260 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 309801000261 nucleotide binding site [chemical binding]; other site 309801000262 SulA interaction site; other site 309801000263 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 309801000264 ATP cone domain; Region: ATP-cone; pfam03477 309801000265 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 309801000266 catalytic residues [active] 309801000267 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 309801000268 putative substrate binding site [chemical binding]; other site 309801000269 putative ATP binding site [chemical binding]; other site 309801000270 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 309801000271 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 309801000272 PA/protease or protease-like domain interface [polypeptide binding]; other site 309801000273 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 309801000274 metal binding site [ion binding]; metal-binding site 309801000275 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 309801000276 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 309801000277 active site 309801000278 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 309801000279 putative DNA binding site [nucleotide binding]; other site 309801000280 putative Zn2+ binding site [ion binding]; other site 309801000281 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 309801000282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000283 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 309801000284 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 309801000285 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 309801000286 Ligand Binding Site [chemical binding]; other site 309801000287 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 309801000288 Ligand Binding Site [chemical binding]; other site 309801000289 Integral membrane protein TerC family; Region: TerC; cl10468 309801000290 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 309801000291 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 309801000292 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 309801000293 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 309801000294 generic binding surface II; other site 309801000295 ssDNA binding site; other site 309801000296 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 309801000297 ATP binding site [chemical binding]; other site 309801000298 putative Mg++ binding site [ion binding]; other site 309801000299 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 309801000300 nucleotide binding region [chemical binding]; other site 309801000301 ATP-binding site [chemical binding]; other site 309801000302 Flavin Reductases; Region: FlaRed; cl00801 309801000303 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 309801000304 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 309801000305 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 309801000306 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 309801000307 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 309801000308 S-adenosylmethionine binding site [chemical binding]; other site 309801000309 peptide chain release factor 1; Validated; Region: prfA; PRK00591 309801000310 RF-1 domain; Region: RF-1; cl02875 309801000311 RF-1 domain; Region: RF-1; cl02875 309801000312 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 309801000313 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 309801000314 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 309801000315 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 309801000316 Domain found in IF2B/IF5; Region: eIF-5_eIF-2B; cl00692 309801000317 prephenate dehydratase; Provisional; Region: PRK11898 309801000318 Prephenate dehydratase; Region: PDT; pfam00800 309801000319 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 309801000320 putative L-Phe binding site [chemical binding]; other site 309801000321 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 309801000322 S-adenosylmethionine binding site [chemical binding]; other site 309801000323 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 309801000324 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 309801000325 active site 309801000326 (T/H)XGH motif; other site 309801000327 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 309801000328 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 309801000329 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 309801000330 chorismate binding enzyme; Region: Chorismate_bind; cl10555 309801000331 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 309801000332 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 309801000333 glutamine binding [chemical binding]; other site 309801000334 catalytic triad [active] 309801000335 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 309801000336 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 309801000337 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 309801000338 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 309801000339 active site 309801000340 ribulose/triose binding site [chemical binding]; other site 309801000341 phosphate binding site [ion binding]; other site 309801000342 substrate (anthranilate) binding pocket [chemical binding]; other site 309801000343 product (indole) binding pocket [chemical binding]; other site 309801000344 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 309801000345 active site 309801000346 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 309801000347 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 309801000348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801000349 catalytic residue [active] 309801000350 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 309801000351 substrate binding site [chemical binding]; other site 309801000352 active site 309801000353 catalytic residues [active] 309801000354 heterodimer interface [polypeptide binding]; other site 309801000355 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 309801000356 homotrimer interaction site [polypeptide binding]; other site 309801000357 active site 309801000358 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; cl09108 309801000359 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 309801000360 NeuB family; Region: NeuB; cl00496 309801000361 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 309801000362 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 309801000363 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 309801000364 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 309801000365 RimM N-terminal domain; Region: RimM; pfam01782 309801000366 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 309801000367 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 309801000368 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 309801000369 Domain of unknown function (DUF74); Region: DUF74; cl00426 309801000370 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 309801000371 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309801000372 active site 309801000373 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 309801000374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000375 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801000376 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 309801000377 active site 309801000378 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 309801000379 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 309801000380 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 309801000381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000382 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 309801000383 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 309801000384 [2Fe-2S] cluster binding site [ion binding]; other site 309801000385 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 309801000386 putative alpha subunit interface [polypeptide binding]; other site 309801000387 putative active site [active] 309801000388 putative substrate binding site [chemical binding]; other site 309801000389 Fe binding site [ion binding]; other site 309801000390 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 309801000391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000392 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 309801000393 putative hydrophobic ligand binding site [chemical binding]; other site 309801000394 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 309801000395 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 309801000396 Phage integrase family; Region: Phage_integrase; pfam00589 309801000397 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 309801000398 Int/Topo IB signature motif; other site 309801000399 Transcriptional regulators [Transcription]; Region: FadR; COG2186 309801000400 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 309801000401 DNA-binding site [nucleotide binding]; DNA binding site 309801000402 FCD domain; Region: FCD; cl11656 309801000403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000404 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 309801000405 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 309801000406 ribulose bisphosphate carboxylase, type III; Region: rubisco_III; TIGR03326 309801000407 dimer interface [polypeptide binding]; other site 309801000408 active site 309801000409 catalytic residue [active] 309801000410 metal binding site [ion binding]; metal-binding site 309801000411 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 309801000412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000413 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 309801000414 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 309801000415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 309801000416 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 309801000417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801000418 dimer interface [polypeptide binding]; other site 309801000419 conserved gate region; other site 309801000420 putative PBP binding loops; other site 309801000421 ABC-ATPase subunit interface; other site 309801000422 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801000423 active site 309801000424 metal binding site [ion binding]; metal-binding site 309801000425 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801000426 active site 309801000427 metal binding site [ion binding]; metal-binding site 309801000428 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 309801000429 Interdomain contacts; other site 309801000430 Cytokine receptor motif; other site 309801000431 Phage-related protein, tail component [Function unknown]; Region: COG4733 309801000432 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 309801000433 Interdomain contacts; other site 309801000434 Cytokine receptor motif; other site 309801000435 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 309801000436 Interdomain contacts; other site 309801000437 Cytokine receptor motif; other site 309801000438 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 309801000439 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 309801000440 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 309801000441 lipoyl attachment site [posttranslational modification]; other site 309801000442 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 309801000443 lipoyl attachment site [posttranslational modification]; other site 309801000444 4Fe-4S binding domain; Region: Fer4; cl02805 309801000445 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 309801000446 Cysteine-rich domain; Region: CCG; pfam02754 309801000447 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; cd01985 309801000448 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 309801000449 Ligand binding site [chemical binding]; other site 309801000450 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 309801000451 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 309801000452 Ligand Binding Site [chemical binding]; other site 309801000453 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 309801000454 Cysteine-rich domain; Region: CCG; pfam02754 309801000455 Cysteine-rich domain; Region: CCG; pfam02754 309801000456 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 309801000457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000458 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 309801000459 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 309801000460 Cysteine-rich domain; Region: CCG; pfam02754 309801000461 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 309801000462 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801000463 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 309801000464 lipoyl attachment site [posttranslational modification]; other site 309801000465 DsrE/DsrF-like family; Region: DrsE; cl00672 309801000466 DsrE/DsrF-like family; Region: DrsE; cl00672 309801000467 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 309801000468 CPxP motif; other site 309801000469 haloacid dehalogenase superfamily protein; Provisional; Region: PRK14562 309801000470 Translin family; Region: Translin; cl00957 309801000471 Ferritin-like domain; Region: Ferritin; pfam00210 309801000472 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 309801000473 dinuclear metal binding motif [ion binding]; other site 309801000474 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 309801000475 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 309801000476 tetramer interface [polypeptide binding]; other site 309801000477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801000478 catalytic residue [active] 309801000479 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 309801000480 argininosuccinate lyase; Provisional; Region: PRK00855 309801000481 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 309801000482 active sites [active] 309801000483 tetramer interface [polypeptide binding]; other site 309801000484 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 309801000485 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309801000486 Coenzyme A binding pocket [chemical binding]; other site 309801000487 lipoyl synthase; Provisional; Region: PRK05481 309801000488 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; cl15367 309801000489 FeS/SAM binding site; other site 309801000490 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 309801000491 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 309801000492 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 309801000493 ATP binding site [chemical binding]; other site 309801000494 putative Mg++ binding site [ion binding]; other site 309801000495 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 309801000496 nucleotide binding region [chemical binding]; other site 309801000497 ATP-binding site [chemical binding]; other site 309801000498 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 309801000499 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 309801000500 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309801000501 thiamine monophosphate kinase; Provisional; Region: PRK05731 309801000502 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 309801000503 ATP binding site [chemical binding]; other site 309801000504 dimerization interface [polypeptide binding]; other site 309801000505 putative amidase; Provisional; Region: PRK06169 309801000506 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 309801000507 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 309801000508 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 309801000509 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 309801000510 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309801000511 Coenzyme A binding pocket [chemical binding]; other site 309801000512 UGMP family protein; Validated; Region: PRK09604 309801000513 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 309801000514 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 309801000515 active site 309801000516 dimerization interface [polypeptide binding]; other site 309801000517 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 309801000518 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 309801000519 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 309801000520 putative active site [active] 309801000521 oxyanion strand; other site 309801000522 catalytic triad [active] 309801000523 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 309801000524 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 309801000525 catalytic residues [active] 309801000526 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309801000527 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 309801000528 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 309801000529 substrate binding site [chemical binding]; other site 309801000530 glutamase interaction surface [polypeptide binding]; other site 309801000531 Bacterial SH3 domain; Region: SH3_3; cl02551 309801000532 Bacterial SH3 domain; Region: SH3_3; cl02551 309801000533 NlpC/P60 family; Region: NLPC_P60; cl11438 309801000534 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309801000535 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000536 Walker A/P-loop; other site 309801000537 ATP binding site [chemical binding]; other site 309801000538 Q-loop/lid; other site 309801000539 ABC transporter signature motif; other site 309801000540 Walker B; other site 309801000541 D-loop; other site 309801000542 H-loop/switch region; other site 309801000543 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 309801000544 recombinase A; Provisional; Region: recA; PRK09354 309801000545 hexamer interface [polypeptide binding]; other site 309801000546 Walker A motif; other site 309801000547 ATP binding site [chemical binding]; other site 309801000548 Walker B motif; other site 309801000549 Nitrogen regulatory protein P-II; Region: P-II; cl00412 309801000550 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 309801000551 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 309801000552 Walker A/P-loop; other site 309801000553 ATP binding site [chemical binding]; other site 309801000554 Q-loop/lid; other site 309801000555 ABC transporter signature motif; other site 309801000556 Walker B; other site 309801000557 D-loop; other site 309801000558 H-loop/switch region; other site 309801000559 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 309801000560 Walker A/P-loop; other site 309801000561 ATP binding site [chemical binding]; other site 309801000562 Q-loop/lid; other site 309801000563 ABC transporter signature motif; other site 309801000564 Walker B; other site 309801000565 D-loop; other site 309801000566 H-loop/switch region; other site 309801000567 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 309801000568 Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism; Region: HOT; cd08190 309801000569 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 309801000570 putative active site [active] 309801000571 metal binding site [ion binding]; metal-binding site 309801000572 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 309801000573 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 309801000574 Recombination protein O N terminal; Region: RecO_N; pfam11967 309801000575 Recombination protein O C terminal; Region: RecO_C; pfam02565 309801000576 Entner-Doudoroff aldolase; Region: eda; TIGR01182 309801000577 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 309801000578 active site 309801000579 intersubunit interface [polypeptide binding]; other site 309801000580 catalytic residue [active] 309801000581 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 309801000582 Double zinc ribbon; Region: DZR; pfam12773 309801000583 Nitrogen regulatory protein P-II; Region: P-II; cl00412 309801000584 thymidylate kinase; Validated; Region: tmk; PRK00698 309801000585 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 309801000586 TMP-binding site; other site 309801000587 ATP-binding site [chemical binding]; other site 309801000588 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 309801000589 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 309801000590 Walker A motif; other site 309801000591 ATP binding site [chemical binding]; other site 309801000592 Walker B motif; other site 309801000593 R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich...; Region: R3H; cl00297 309801000594 RxxxH motif; other site 309801000595 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 309801000596 recombination protein RecR; Reviewed; Region: recR; PRK00076 309801000597 RecR protein; Region: RecR; pfam02132 309801000598 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 309801000599 putative active site [active] 309801000600 putative metal-binding site [ion binding]; other site 309801000601 tetramer interface [polypeptide binding]; other site 309801000602 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 309801000603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000604 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 309801000605 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 309801000606 Fe-S cluster binding site [ion binding]; other site 309801000607 active site 309801000608 hypothetical protein; Validated; Region: PRK07883 309801000609 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 309801000610 active site 309801000611 substrate binding site [chemical binding]; other site 309801000612 catalytic site [active] 309801000613 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 309801000614 GIY-YIG motif/motif A; other site 309801000615 active site 309801000616 catalytic site [active] 309801000617 putative DNA binding site [nucleotide binding]; other site 309801000618 metal binding site [ion binding]; metal-binding site 309801000619 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 309801000620 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 309801000621 nucleotide binding pocket [chemical binding]; other site 309801000622 K-X-D-G motif; other site 309801000623 catalytic site [active] 309801000624 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 309801000625 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 309801000626 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 309801000627 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 309801000628 Dimer interface [polypeptide binding]; other site 309801000629 BRCT sequence motif; other site 309801000630 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801000631 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 309801000632 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 309801000633 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 309801000634 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801000635 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 309801000636 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801000637 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 309801000638 IMP binding site; other site 309801000639 dimer interface [polypeptide binding]; other site 309801000640 interdomain contacts; other site 309801000641 partial ornithine binding site; other site 309801000642 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 309801000643 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 309801000644 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 309801000645 catalytic site [active] 309801000646 subunit interface [polypeptide binding]; other site 309801000647 dihydroorotase; Validated; Region: pyrC; PRK09357 309801000648 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 309801000649 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 309801000650 active site 309801000651 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 309801000652 active site 309801000653 dimer interface [polypeptide binding]; other site 309801000654 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 309801000655 TRAM domain; Region: TRAM; cl01282 309801000656 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 309801000657 S-adenosylmethionine binding site [chemical binding]; other site 309801000658 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 309801000659 spermidine synthase; Provisional; Region: PRK00811 309801000660 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 309801000661 S-adenosylmethionine binding site [chemical binding]; other site 309801000662 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 309801000663 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 309801000664 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 309801000665 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 309801000666 FtsX-like permease family; Region: FtsX; pfam02687 309801000667 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 309801000668 FtsX-like permease family; Region: FtsX; pfam02687 309801000669 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 309801000670 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 309801000671 peptide binding site [polypeptide binding]; other site 309801000672 dimer interface [polypeptide binding]; other site 309801000673 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 309801000674 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 309801000675 Walker A/P-loop; other site 309801000676 ATP binding site [chemical binding]; other site 309801000677 Q-loop/lid; other site 309801000678 ABC transporter signature motif; other site 309801000679 Walker B; other site 309801000680 D-loop; other site 309801000681 H-loop/switch region; other site 309801000682 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 309801000683 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 309801000684 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309801000685 Zn2+ binding site [ion binding]; other site 309801000686 Mg2+ binding site [ion binding]; other site 309801000687 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 309801000688 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 309801000689 NAD binding site [chemical binding]; other site 309801000690 substrate binding site [chemical binding]; other site 309801000691 homodimer interface [polypeptide binding]; other site 309801000692 active site 309801000693 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 309801000694 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; cl00120 309801000695 shikimate kinase; Reviewed; Region: aroK; PRK00131 309801000696 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000697 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000698 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 309801000699 peptide binding site [polypeptide binding]; other site 309801000700 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801000701 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 309801000702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309801000703 Coenzyme A binding pocket [chemical binding]; other site 309801000704 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 309801000705 Tetramer interface [polypeptide binding]; other site 309801000706 active site 309801000707 FMN-binding site [chemical binding]; other site 309801000708 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 309801000709 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 309801000710 hinge; other site 309801000711 active site 309801000712 Cupin domain; Region: Cupin_2; cl09118 309801000713 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 309801000714 S-adenosylmethionine binding site [chemical binding]; other site 309801000715 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 309801000716 SmpB-tmRNA interface; other site 309801000717 EVE domain; Region: EVE; cl00728 309801000718 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 309801000719 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 309801000720 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 309801000721 active site 309801000722 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 309801000723 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 309801000724 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 309801000725 active site 309801000726 catalytic tetrad [active] 309801000727 Domain of unknown function (DUF718); Region: DUF718; cl01281 309801000728 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 309801000729 classical (c) SDRs; Region: SDR_c; cd05233 309801000730 NAD(P) binding site [chemical binding]; other site 309801000731 active site 309801000732 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801000733 dimer interface [polypeptide binding]; other site 309801000734 conserved gate region; other site 309801000735 putative PBP binding loops; other site 309801000736 ABC-ATPase subunit interface; other site 309801000737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801000738 dimer interface [polypeptide binding]; other site 309801000739 conserved gate region; other site 309801000740 putative PBP binding loops; other site 309801000741 ABC-ATPase subunit interface; other site 309801000742 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 309801000743 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 309801000744 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801000745 Transcriptional regulator [Transcription]; Region: IclR; COG1414 309801000746 Bacterial transcriptional regulator; Region: IclR; pfam01614 309801000747 E3 Ubiquitin ligase; Region: GIDE; pfam12483 309801000748 YtxH-like protein; Region: YtxH; cl02079 309801000749 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801000750 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801000751 FAD binding domain; Region: FAD_binding_4; pfam01565 309801000752 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 309801000753 FAD binding domain; Region: FAD_binding_4; pfam01565 309801000754 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 309801000755 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 309801000756 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 309801000757 Cysteine-rich domain; Region: CCG; pfam02754 309801000758 Cysteine-rich domain; Region: CCG; pfam02754 309801000759 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 309801000760 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309801000761 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801000762 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 309801000763 active site 309801000764 metal binding site [ion binding]; metal-binding site 309801000765 DNA binding site [nucleotide binding] 309801000766 Domain of unknown function DUF87; Region: DUF87; pfam01935 309801000767 AAA-like domain; Region: AAA_10; pfam12846 309801000768 GAF domain; Region: GAF; cl00853 309801000769 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309801000770 GAF domain; Region: GAF; cl00853 309801000771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 309801000772 Histidine kinase; Region: HisKA_2; cl06527 309801000773 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 309801000774 ATP binding site [chemical binding]; other site 309801000775 Mg2+ binding site [ion binding]; other site 309801000776 G-X-G motif; other site 309801000777 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 309801000778 classical (c) SDRs; Region: SDR_c; cd05233 309801000779 NAD(P) binding site [chemical binding]; other site 309801000780 active site 309801000781 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 309801000782 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 309801000783 oligomer interface [polypeptide binding]; other site 309801000784 active site 309801000785 metal binding site [ion binding]; metal-binding site 309801000786 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 309801000787 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 309801000788 Walker A/P-loop; other site 309801000789 ATP binding site [chemical binding]; other site 309801000790 Q-loop/lid; other site 309801000791 ABC transporter signature motif; other site 309801000792 Walker B; other site 309801000793 D-loop; other site 309801000794 H-loop/switch region; other site 309801000795 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 309801000796 FtsX-like permease family; Region: FtsX; pfam02687 309801000797 FtsX-like permease family; Region: FtsX; pfam02687 309801000798 YibE/F-like protein; Region: YibE_F; cl02259 309801000799 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; cl01497 309801000800 active site 309801000801 Rhomboid family; Region: Rhomboid; cl11446 309801000802 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 309801000803 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801000804 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 309801000805 hypothetical protein; Provisional; Region: PRK07906 309801000806 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 309801000807 putative metal binding site [ion binding]; other site 309801000808 EamA-like transporter family; Region: EamA; cl01037 309801000809 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 309801000810 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 309801000811 HSP70 interaction site [polypeptide binding]; other site 309801000812 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801000813 enoyl-CoA hydratase; Provisional; Region: PRK06688 309801000814 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 309801000815 substrate binding site [chemical binding]; other site 309801000816 oxyanion hole (OAH) forming residues; other site 309801000817 trimer interface [polypeptide binding]; other site 309801000818 FtsH Extracellular; Region: FtsH_ext; pfam06480 309801000819 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 309801000820 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 309801000821 Walker A motif; other site 309801000822 ATP binding site [chemical binding]; other site 309801000823 Walker B motif; other site 309801000824 arginine finger; other site 309801000825 Peptidase family M41; Region: Peptidase_M41; pfam01434 309801000826 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 309801000827 Ligand Binding Site [chemical binding]; other site 309801000828 B3/4 domain; Region: B3_4; cl11458 309801000829 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801000830 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 309801000831 classical (c) SDRs; Region: SDR_c; cd05233 309801000832 NAD(P) binding site [chemical binding]; other site 309801000833 active site 309801000834 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309801000835 classical (c) SDRs; Region: SDR_c; cd05233 309801000836 NAD(P) binding site [chemical binding]; other site 309801000837 active site 309801000838 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 309801000839 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 309801000840 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 309801000841 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 309801000842 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000843 pyruvate phosphate dikinase; Provisional; Region: PRK09279 309801000844 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 309801000845 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 309801000846 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; cl09155 309801000847 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 309801000848 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 309801000849 Zn binding site [ion binding]; other site 309801000850 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 309801000851 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 309801000852 Zn binding site [ion binding]; other site 309801000853 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 309801000854 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 309801000855 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 309801000856 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 309801000857 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 309801000858 OsmC-like protein; Region: OsmC; cl00767 309801000859 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 309801000860 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 309801000861 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 309801000862 FeS/SAM binding site; other site 309801000863 Protein of unknown function DUF111; Region: DUF111; cl03398 309801000864 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 309801000865 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 309801000866 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 309801000867 Walker A/P-loop; other site 309801000868 ATP binding site [chemical binding]; other site 309801000869 Q-loop/lid; other site 309801000870 ABC transporter signature motif; other site 309801000871 Walker B; other site 309801000872 D-loop; other site 309801000873 H-loop/switch region; other site 309801000874 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 309801000875 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 309801000876 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 309801000877 N-terminal, non-catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_N_like; cd09013 309801000878 tetramer interface [polypeptide binding]; other site 309801000879 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 309801000880 C-terminal, catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_C_like; cd09014 309801000881 tetramer interface [polypeptide binding]; other site 309801000882 active site 309801000883 metal binding site [ion binding]; metal-binding site 309801000884 potential frameshift: common BLAST hit: gi|156742383|ref|YP_001432512.1| 4-hydroxyphenylacetate 3-hydroxylase 309801000885 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 309801000886 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 309801000887 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 309801000888 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 309801000889 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 309801000890 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 309801000891 dimerization interface [polypeptide binding]; other site 309801000892 putative DNA binding site [nucleotide binding]; other site 309801000893 putative Zn2+ binding site [ion binding]; other site 309801000894 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 309801000895 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; cl00159 309801000896 catalytic loop [active] 309801000897 iron binding site [ion binding]; other site 309801000898 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 309801000899 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 309801000900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000901 domain; Region: Succ_DH_flav_C; pfam02910 309801000902 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase D (SdhD)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhD_like; cd03500 309801000903 putative Iron-sulfur protein interface [polypeptide binding]; other site 309801000904 putative proximal heme binding site [chemical binding]; other site 309801000905 putative SdhC-like subunit interface [polypeptide binding]; other site 309801000906 putative distal heme binding site [chemical binding]; other site 309801000907 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase C (SdhC)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhC_like; cd03501 309801000908 putative Iron-sulfur protein interface [polypeptide binding]; other site 309801000909 putative proximal heme binding site [chemical binding]; other site 309801000910 putative SdhD-like interface [polypeptide binding]; other site 309801000911 putative distal heme binding site [chemical binding]; other site 309801000912 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 309801000913 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 309801000914 putative metal binding site [ion binding]; other site 309801000915 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 309801000916 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 309801000917 active site 309801000918 substrate binding site [chemical binding]; other site 309801000919 catalytic site [active] 309801000920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000921 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000923 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 309801000924 putative active site [active] 309801000925 transcription termination factor Rho; Provisional; Region: rho; PRK09376 309801000926 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 309801000927 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 309801000928 RNA binding site [nucleotide binding]; other site 309801000929 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 309801000930 multimer interface [polypeptide binding]; other site 309801000931 Walker A motif; other site 309801000932 ATP binding site [chemical binding]; other site 309801000933 Walker B motif; other site 309801000934 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309801000935 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 309801000936 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 309801000937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801000938 ABC transporter signature motif; other site 309801000939 Walker B; other site 309801000940 D-loop; other site 309801000941 H-loop/switch region; other site 309801000942 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 309801000943 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 309801000944 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; cl12011 309801000945 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 309801000946 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 309801000947 active site 309801000948 Substrate binding site; other site 309801000949 Mg++ binding site; other site 309801000950 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 309801000951 putative trimer interface [polypeptide binding]; other site 309801000952 putative CoA binding site [chemical binding]; other site 309801000953 Predicted membrane protein (DUF2085); Region: DUF2085; cl01570 309801000954 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 309801000955 Flavoprotein; Region: Flavoprotein; cl08021 309801000956 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 309801000957 eRF1 domain 2; Region: eRF1_2; pfam03464 309801000958 eRF1 domain 3; Region: eRF1_3; pfam03465 309801000959 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 309801000960 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 309801000961 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801000962 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14338 309801000963 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 309801000964 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 309801000965 FeS/SAM binding site; other site 309801000966 TRAM domain; Region: TRAM; cl01282 309801000967 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 309801000968 binding surface 309801000969 TPR motif; other site 309801000970 Uncharacterized conserved protein [Function unknown]; Region: COG1912 309801000971 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 309801000972 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 309801000973 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 309801000974 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 309801000975 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 309801000976 GTP binding site; other site 309801000977 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801000978 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 309801000979 hypothetical protein; Provisional; Region: PRK07524 309801000980 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801000981 PYR/PP interface [polypeptide binding]; other site 309801000982 dimer interface [polypeptide binding]; other site 309801000983 TPP binding site [chemical binding]; other site 309801000984 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801000985 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 309801000986 TPP-binding site [chemical binding]; other site 309801000987 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 309801000988 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 309801000989 active site 309801000990 catalytic residues [active] 309801000991 metal binding site [ion binding]; metal-binding site 309801000992 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 309801000993 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 309801000994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000995 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 309801000996 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 309801000997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801000998 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 309801000999 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 309801001000 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 309801001001 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 309801001002 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 309801001003 Glycosyltransferase family 20; Region: Glyco_transf_20; pfam00982 309801001004 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 309801001005 active site 309801001006 homotetramer interface [polypeptide binding]; other site 309801001007 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801001008 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 309801001009 Domain of unknown function DUF59; Region: DUF59; cl00941 309801001010 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 309801001011 trimerization site [polypeptide binding]; other site 309801001012 active site 309801001013 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 309801001014 Aminotransferase class-V; Region: Aminotran_5; pfam00266 309801001015 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801001016 catalytic residue [active] 309801001017 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 309801001018 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 309801001019 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 309801001020 FeS assembly protein SufB; Region: sufB; TIGR01980 309801001021 FeS assembly ATPase SufC; Region: sufC; TIGR01978 309801001022 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 309801001023 Walker A/P-loop; other site 309801001024 ATP binding site [chemical binding]; other site 309801001025 Q-loop/lid; other site 309801001026 ABC transporter signature motif; other site 309801001027 Walker B; other site 309801001028 D-loop; other site 309801001029 H-loop/switch region; other site 309801001030 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 309801001031 metal binding site 2 [ion binding]; metal-binding site 309801001032 putative DNA binding helix; other site 309801001033 metal binding site 1 [ion binding]; metal-binding site 309801001034 dimer interface [polypeptide binding]; other site 309801001035 structural Zn2+ binding site [ion binding]; other site 309801001036 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 309801001037 trimerization site [polypeptide binding]; other site 309801001038 active site 309801001039 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 309801001040 active site 309801001041 catalytic site [active] 309801001042 substrate binding site [chemical binding]; other site 309801001043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801001044 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 309801001045 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 309801001046 active site 309801001047 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 309801001048 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 309801001049 active site 309801001050 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 309801001051 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 309801001052 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 309801001053 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 309801001054 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 309801001055 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801001056 catalytic residue [active] 309801001057 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 309801001058 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 309801001059 homodimer interface [polypeptide binding]; other site 309801001060 substrate-cofactor binding pocket; other site 309801001061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801001062 catalytic residue [active] 309801001063 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 309801001064 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 309801001065 peptide binding site [polypeptide binding]; other site 309801001066 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801001067 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801001068 dimer interface [polypeptide binding]; other site 309801001069 conserved gate region; other site 309801001070 putative PBP binding loops; other site 309801001071 ABC-ATPase subunit interface; other site 309801001072 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 309801001073 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 309801001074 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801001075 dimer interface [polypeptide binding]; other site 309801001076 conserved gate region; other site 309801001077 putative PBP binding loops; other site 309801001078 ABC-ATPase subunit interface; other site 309801001079 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 309801001080 dimer interface [polypeptide binding]; other site 309801001081 substrate binding site [chemical binding]; other site 309801001082 ATP binding site [chemical binding]; other site 309801001083 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 309801001084 ThiS interaction site; other site 309801001085 putative active site [active] 309801001086 tetramer interface [polypeptide binding]; other site 309801001087 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 309801001088 thiamine phosphate binding site [chemical binding]; other site 309801001089 active site 309801001090 pyrophosphate binding site [ion binding]; other site 309801001091 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 309801001092 active site 309801001093 pyrophosphate binding site [ion binding]; other site 309801001094 thiamine phosphate binding site [chemical binding]; other site 309801001095 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 309801001096 thiS-thiF/thiG interaction site; other site 309801001097 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 309801001098 DNA binding site [nucleotide binding] 309801001099 active site 309801001100 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 309801001101 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 309801001102 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 309801001103 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 309801001104 nucleotide binding region [chemical binding]; other site 309801001105 ATP-binding site [chemical binding]; other site 309801001106 SEC-C motif; Region: SEC-C; pfam02810 309801001107 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 309801001108 amphipathic channel; other site 309801001109 Asn-Pro-Ala signature motifs; other site 309801001110 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 309801001111 Protein of unknown function (DUF461); Region: DUF461; cl01071 309801001112 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 309801001113 Cu(I) binding site [ion binding]; other site 309801001114 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801001115 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 309801001116 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801001117 dihydrodipicolinate reductase; Provisional; Region: PRK00048 309801001118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001119 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 309801001120 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 309801001121 dihydrodipicolinate synthase; Region: dapA; TIGR00674 309801001122 dimer interface [polypeptide binding]; other site 309801001123 active site 309801001124 catalytic residue [active] 309801001125 B3/4 domain; Region: B3_4; cl11458 309801001126 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 309801001127 UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase; Region: mycothiol_MshA; TIGR03449 309801001128 putative ADP-binding pocket [chemical binding]; other site 309801001129 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 309801001130 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 309801001131 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 309801001132 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801001133 catalytic residue [active] 309801001134 CHC2 zinc finger; Region: zf-CHC2; cl15369 309801001135 DNA primase, catalytic core; Region: dnaG; TIGR01391 309801001136 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 309801001137 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 309801001138 active site 309801001139 metal binding site [ion binding]; metal-binding site 309801001140 interdomain interaction site; other site 309801001141 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309801001142 Zn2+ binding site [ion binding]; other site 309801001143 Mg2+ binding site [ion binding]; other site 309801001144 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 309801001145 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 309801001146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 309801001147 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 309801001148 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 309801001149 GIY-YIG motif/motif A; other site 309801001150 active site 309801001151 catalytic site [active] 309801001152 putative DNA binding site [nucleotide binding]; other site 309801001153 metal binding site [ion binding]; metal-binding site 309801001154 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 309801001155 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 309801001156 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 309801001157 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 309801001158 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 309801001159 recombination factor protein RarA; Reviewed; Region: PRK13342 309801001160 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 309801001161 Walker A motif; other site 309801001162 ATP binding site [chemical binding]; other site 309801001163 Walker B motif; other site 309801001164 arginine finger; other site 309801001165 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 309801001166 ribonuclease PH; Reviewed; Region: rph; PRK00173 309801001167 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 309801001168 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 309801001169 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 309801001170 putative active site pocket [active] 309801001171 4-fold oligomerization interface [polypeptide binding]; other site 309801001172 metal binding residues [ion binding]; metal-binding site 309801001173 3-fold/trimer interface [polypeptide binding]; other site 309801001174 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 309801001175 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 309801001176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801001177 homodimer interface [polypeptide binding]; other site 309801001178 catalytic residue [active] 309801001179 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 309801001180 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 309801001181 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 309801001182 RNA binding surface [nucleotide binding]; other site 309801001183 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 309801001184 active site 309801001185 cytidylate kinase; Provisional; Region: cmk; PRK00023 309801001186 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 309801001187 CMP-binding site; other site 309801001188 The sites determining sugar specificity; other site 309801001189 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 309801001190 putative acyl-acceptor binding pocket; other site 309801001191 Uncharacterized conserved protein [Function unknown]; Region: COG2006 309801001192 Domain of unknown function (DUF362); Region: DUF362; pfam04015 309801001193 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 309801001194 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 309801001195 DNA binding residues [nucleotide binding] 309801001196 putative dimer interface [polypeptide binding]; other site 309801001197 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 309801001198 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 309801001199 Clp amino terminal domain; Region: Clp_N; pfam02861 309801001200 Clp amino terminal domain; Region: Clp_N; pfam02861 309801001201 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 309801001202 Walker A motif; other site 309801001203 ATP binding site [chemical binding]; other site 309801001204 Walker B motif; other site 309801001205 arginine finger; other site 309801001206 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 309801001207 Walker A motif; other site 309801001208 ATP binding site [chemical binding]; other site 309801001209 Walker B motif; other site 309801001210 arginine finger; other site 309801001211 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 309801001212 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 309801001213 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 309801001214 substrate binding site [chemical binding]; other site 309801001215 THF binding site; other site 309801001216 zinc-binding site [ion binding]; other site 309801001217 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 309801001218 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 309801001219 NAD binding site [chemical binding]; other site 309801001220 catalytic Zn binding site [ion binding]; other site 309801001221 substrate binding site [chemical binding]; other site 309801001222 structural Zn binding site [ion binding]; other site 309801001223 NeuB family; Region: NeuB; cl00496 309801001224 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 309801001225 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 309801001226 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 includes...; Region: RuvC_resolvase; cl00243 309801001227 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; cl09155 309801001228 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 309801001229 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 309801001230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001231 NAD synthetase; Provisional; Region: PRK13981 309801001232 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 309801001233 multimer interface [polypeptide binding]; other site 309801001234 active site 309801001235 catalytic triad [active] 309801001236 protein interface 1 [polypeptide binding]; other site 309801001237 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 309801001238 homodimer interface [polypeptide binding]; other site 309801001239 NAD binding pocket [chemical binding]; other site 309801001240 ATP binding pocket [chemical binding]; other site 309801001241 Mg binding site [ion binding]; other site 309801001242 active-site loop [active] 309801001243 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 309801001244 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 309801001245 Walker A/P-loop; other site 309801001246 ATP binding site [chemical binding]; other site 309801001247 Q-loop/lid; other site 309801001248 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 309801001249 ABC transporter signature motif; other site 309801001250 Walker B; other site 309801001251 D-loop; other site 309801001252 H-loop/switch region; other site 309801001253 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 309801001254 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 309801001255 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801001256 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 309801001257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001258 Cytochrome c; Region: Cytochrom_C; cl11414 309801001259 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 309801001260 Polysulphide reductase, NrfD; Region: NrfD; cl01295 309801001261 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 309801001262 4Fe-4S binding domain; Region: Fer4; cl02805 309801001263 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 309801001264 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801001265 molybdopterin cofactor binding site; other site 309801001266 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 309801001267 molybdopterin cofactor binding site; other site 309801001268 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 309801001269 heme-binding residues [chemical binding]; other site 309801001270 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 309801001271 Bacterial SH3 domain; Region: SH3_3; cl02551 309801001272 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 309801001273 TPP-binding site [chemical binding]; other site 309801001274 dimer interface [polypeptide binding]; other site 309801001275 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 309801001276 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 309801001277 PYR/PP interface [polypeptide binding]; other site 309801001278 dimer interface [polypeptide binding]; other site 309801001279 TPP binding site [chemical binding]; other site 309801001280 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309801001281 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 309801001282 tetramer (dimer of dimers) interface [polypeptide binding]; other site 309801001283 active site 309801001284 dimer interface [polypeptide binding]; other site 309801001285 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 309801001286 putative peptidoglycan binding site; other site 309801001287 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 309801001288 putative peptidoglycan binding site; other site 309801001289 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 309801001290 putative peptidoglycan binding site; other site 309801001291 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 309801001292 putative active site [active] 309801001293 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 309801001294 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 309801001295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001296 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 309801001297 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 309801001298 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 309801001299 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 309801001300 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 309801001301 protein binding site [polypeptide binding]; other site 309801001302 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 309801001303 Catalytic dyad [active] 309801001304 Domain of unknown function (DUF309); Region: DUF309; cl00667 309801001305 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 309801001306 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 309801001307 Bacitracin resistance protein BacA; Region: BacA; cl00858 309801001308 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 309801001309 putative substrate translocation pore; other site 309801001310 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 309801001311 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 309801001312 dimer interface [polypeptide binding]; other site 309801001313 putative tRNA-binding site [nucleotide binding]; other site 309801001314 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 309801001315 nudix motif; other site 309801001316 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 309801001317 malate synthase A; Region: malate_syn_A; TIGR01344 309801001318 active site 309801001319 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 309801001320 tetramer interface [polypeptide binding]; other site 309801001321 active site 309801001322 Mg2+/Mn2+ binding site [ion binding]; other site 309801001323 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 309801001324 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801001325 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 309801001326 putative dimerization interface [polypeptide binding]; other site 309801001327 Protein of unknown function DUF72; Region: DUF72; cl00777 309801001328 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 309801001329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001330 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 309801001331 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 309801001332 catalytic motif [active] 309801001333 Zn binding site [ion binding]; other site 309801001334 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; cl00161 309801001335 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 309801001336 Lumazine binding domain; Region: Lum_binding; pfam00677 309801001337 Lumazine binding domain; Region: Lum_binding; pfam00677 309801001338 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 309801001339 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 309801001340 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 309801001341 dimerization interface [polypeptide binding]; other site 309801001342 active site 309801001343 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 309801001344 homopentamer interface [polypeptide binding]; other site 309801001345 active site 309801001346 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 309801001347 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 309801001348 SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB...; Region: SelB; cd04171 309801001349 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 309801001350 G1 box; other site 309801001351 putative GEF interaction site [polypeptide binding]; other site 309801001352 GTP/Mg2+ binding site [chemical binding]; other site 309801001353 Switch I region; other site 309801001354 G2 box; other site 309801001355 G3 box; other site 309801001356 Switch II region; other site 309801001357 G4 box; other site 309801001358 G5 box; other site 309801001359 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 309801001360 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 309801001361 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 309801001362 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 309801001363 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 309801001364 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 309801001365 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 309801001366 catalytic residues [active] 309801001367 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 309801001368 dimerization interface [polypeptide binding]; other site 309801001369 putative active cleft [active] 309801001370 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 309801001371 multifunctional aminopeptidase A; Provisional; Region: PRK00913 309801001372 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 309801001373 interface (dimer of trimers) [polypeptide binding]; other site 309801001374 Substrate-binding/catalytic site; other site 309801001375 Zn-binding sites [ion binding]; other site 309801001376 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 309801001377 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 309801001378 non-specific DNA binding site [nucleotide binding]; other site 309801001379 salt bridge; other site 309801001380 sequence-specific DNA binding site [nucleotide binding]; other site 309801001381 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 309801001382 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 309801001383 active site residue [active] 309801001384 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 309801001385 active site residue [active] 309801001386 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 309801001387 S-adenosylmethionine binding site [chemical binding]; other site 309801001388 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; cl12011 309801001389 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 309801001390 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 309801001391 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 309801001392 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 309801001393 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801001394 dimer interface [polypeptide binding]; other site 309801001395 conserved gate region; other site 309801001396 putative PBP binding loops; other site 309801001397 ABC-ATPase subunit interface; other site 309801001398 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801001399 dimer interface [polypeptide binding]; other site 309801001400 conserved gate region; other site 309801001401 putative PBP binding loops; other site 309801001402 ABC-ATPase subunit interface; other site 309801001403 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 309801001404 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 309801001405 Walker A/P-loop; other site 309801001406 ATP binding site [chemical binding]; other site 309801001407 Q-loop/lid; other site 309801001408 ABC transporter signature motif; other site 309801001409 Walker B; other site 309801001410 D-loop; other site 309801001411 H-loop/switch region; other site 309801001412 TOBE domain; Region: TOBE_2; cl01440 309801001413 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 309801001414 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801001415 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309801001416 Domain of unknown function DUF59; Region: DUF59; cl00941 309801001417 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 309801001418 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 309801001419 Walker A motif; other site 309801001420 Double zinc ribbon; Region: DZR; pfam12773 309801001421 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 309801001422 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 309801001423 dimer interface [polypeptide binding]; other site 309801001424 active site 309801001425 Arginase family; Region: Arginase; cl00306 309801001426 Arginase family; Region: Arginase; cl00306 309801001427 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 309801001428 urease subunit alpha; Reviewed; Region: ureC; PRK13207 309801001429 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 309801001430 active site 309801001431 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 309801001432 alpha-beta subunit interface [polypeptide binding]; other site 309801001433 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 309801001434 alpha-gamma subunit interface [polypeptide binding]; other site 309801001435 beta-gamma subunit interface [polypeptide binding]; other site 309801001436 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 309801001437 galactokinase; Provisional; Region: PRK00555 309801001438 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 309801001439 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 309801001440 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801001441 active site 309801001442 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 309801001443 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 309801001444 active site 309801001445 HIGH motif; other site 309801001446 nucleotide binding site [chemical binding]; other site 309801001447 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 309801001448 KMSK motif region; other site 309801001449 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 309801001450 tRNA binding surface [nucleotide binding]; other site 309801001451 anticodon binding site; other site 309801001452 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 309801001453 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 309801001454 trimer interface [polypeptide binding]; other site 309801001455 active site 309801001456 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 309801001457 ABC-2 type transporter; Region: ABC2_membrane; cl11417 309801001458 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 309801001459 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 309801001460 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 309801001461 Predicted transcriptional regulator [Transcription]; Region: COG2345 309801001462 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 309801001463 Phage integrase family; Region: Phage_integrase; pfam00589 309801001464 Int/Topo IB signature motif; other site 309801001465 DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the...; Region: ABC_DrrA; cd03265 309801001466 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 309801001467 Walker A/P-loop; other site 309801001468 ATP binding site [chemical binding]; other site 309801001469 Q-loop/lid; other site 309801001470 ABC transporter signature motif; other site 309801001471 Walker B; other site 309801001472 D-loop; other site 309801001473 H-loop/switch region; other site 309801001474 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801001475 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 309801001476 Low-spin heme binding site [chemical binding]; other site 309801001477 D-pathway; other site 309801001478 Putative water exit pathway; other site 309801001479 Binuclear center (active site) [active] 309801001480 K-pathway; other site 309801001481 Putative proton exit pathway; other site 309801001482 hypothetical protein; Provisional; Region: PRK08266 309801001483 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801001484 PYR/PP interface [polypeptide binding]; other site 309801001485 dimer interface [polypeptide binding]; other site 309801001486 TPP binding site [chemical binding]; other site 309801001487 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801001488 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 309801001489 TPP-binding site [chemical binding]; other site 309801001490 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309801001491 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 309801001492 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 309801001493 E3 interaction surface; other site 309801001494 lipoyl attachment site [posttranslational modification]; other site 309801001495 e3 binding domain; Region: E3_binding; pfam02817 309801001496 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 309801001497 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 309801001498 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 309801001499 TPP-binding site [chemical binding]; other site 309801001500 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 309801001501 dimer interface [polypeptide binding]; other site 309801001502 PYR/PP interface [polypeptide binding]; other site 309801001503 TPP binding site [chemical binding]; other site 309801001504 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 309801001505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001507 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 309801001508 MgtE intracellular N domain; Region: MgtE_N; cl15244 309801001509 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 309801001510 Divalent cation transporter; Region: MgtE; cl00786 309801001511 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801001512 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 309801001513 putative substrate translocation pore; other site 309801001514 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 309801001515 hypothetical protein; Provisional; Region: PRK08609 309801001516 active site 309801001517 primer binding site [nucleotide binding]; other site 309801001518 NTP binding site [chemical binding]; other site 309801001519 metal binding triad [ion binding]; metal-binding site 309801001520 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 309801001521 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 309801001522 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 309801001523 putative substrate binding site [chemical binding]; other site 309801001524 nucleotide binding site [chemical binding]; other site 309801001525 nucleotide binding site [chemical binding]; other site 309801001526 homodimer interface [polypeptide binding]; other site 309801001527 membrane protein FdrA; Validated; Region: PRK06091 309801001528 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 309801001529 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 309801001530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001531 CoA-ligase; Region: Ligase_CoA; pfam00549 309801001532 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 309801001533 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 309801001534 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 309801001535 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 309801001536 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; cl00159 309801001537 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 309801001538 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 309801001539 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801001540 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801001541 Putative cyclase; Region: Cyclase; cl00814 309801001542 Putative cyclase; Region: Cyclase; cl00814 309801001543 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 309801001544 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 309801001545 putative NAD(P) binding site [chemical binding]; other site 309801001546 putative substrate binding site [chemical binding]; other site 309801001547 catalytic Zn binding site [ion binding]; other site 309801001548 structural Zn binding site [ion binding]; other site 309801001549 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 309801001550 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 309801001551 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309801001552 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 309801001553 motif II; other site 309801001554 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 309801001555 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 309801001556 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 309801001557 Cytochrome c; Region: Cytochrom_C; cl11414 309801001558 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 309801001559 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 309801001560 dimerization interface [polypeptide binding]; other site 309801001561 active site 309801001562 Quinolinate synthetase A protein; Region: NadA; cl00420 309801001563 NMT1/THI5 like; Region: NMT1; pfam09084 309801001564 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 309801001565 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 309801001566 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801001567 putative PBP binding loops; other site 309801001568 ABC-ATPase subunit interface; other site 309801001569 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 309801001570 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 309801001571 Walker A/P-loop; other site 309801001572 ATP binding site [chemical binding]; other site 309801001573 Q-loop/lid; other site 309801001574 ABC transporter signature motif; other site 309801001575 Walker B; other site 309801001576 D-loop; other site 309801001577 H-loop/switch region; other site 309801001578 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801001579 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801001580 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 309801001581 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 309801001582 Protein of unknown function (DUF3090); Region: DUF3090; cl12832 309801001583 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 309801001584 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 309801001585 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 309801001586 dimerization interface [polypeptide binding]; other site 309801001587 putative ATP binding site [chemical binding]; other site 309801001588 6-phosphofructokinase; Provisional; Region: PRK03202 309801001589 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 309801001590 active site 309801001591 ADP/pyrophosphate binding site [chemical binding]; other site 309801001592 allosteric effector site; other site 309801001593 dimerization interface [polypeptide binding]; other site 309801001594 fructose-1,6-bisphosphate binding site; other site 309801001595 prolyl-tRNA synthetase; Provisional; Region: PRK08661 309801001596 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 formation of...; Region: ProRS_core_arch_euk; cd00778 309801001597 dimer interface [polypeptide binding]; other site 309801001598 motif 1; other site 309801001599 active site 309801001600 motif 2; other site 309801001601 motif 3; other site 309801001602 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 309801001603 anticodon binding site; other site 309801001604 zinc-binding site [ion binding]; other site 309801001605 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 309801001606 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 309801001607 substrate binding site [chemical binding]; other site 309801001608 hexamer interface [polypeptide binding]; other site 309801001609 metal binding site [ion binding]; metal-binding site 309801001610 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 309801001611 MPT binding site; other site 309801001612 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 309801001613 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 309801001614 phosphopeptide binding site; other site 309801001615 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 309801001616 phosphopeptide binding site; other site 309801001617 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 309801001618 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 309801001619 Ligand binding site; other site 309801001620 Putative Catalytic site; other site 309801001621 DXD motif; other site 309801001622 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 309801001623 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 309801001624 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 309801001625 Ligand Binding Site [chemical binding]; other site 309801001626 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 309801001627 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 309801001628 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 309801001629 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 309801001630 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 309801001631 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 309801001632 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 309801001633 putative nucleic acid binding region [nucleotide binding]; other site 309801001634 G-X-X-G motif; other site 309801001635 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 309801001636 RNA binding site [nucleotide binding]; other site 309801001637 domain interface; other site 309801001638 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 309801001639 16S/18S rRNA binding site [nucleotide binding]; other site 309801001640 S13e-L30e interaction site [polypeptide binding]; other site 309801001641 25S rRNA binding site [nucleotide binding]; other site 309801001642 ketol-acid reductoisomerase; Provisional; Region: PRK05479 309801001643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001644 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 309801001645 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 309801001646 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 309801001647 putative valine binding site [chemical binding]; other site 309801001648 dimer interface [polypeptide binding]; other site 309801001649 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 309801001650 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 309801001651 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801001652 PYR/PP interface [polypeptide binding]; other site 309801001653 dimer interface [polypeptide binding]; other site 309801001654 TPP binding site [chemical binding]; other site 309801001655 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801001656 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 309801001657 TPP-binding site [chemical binding]; other site 309801001658 dimer interface [polypeptide binding]; other site 309801001659 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309801001660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801001661 active site 309801001662 phosphorylation site [posttranslational modification] 309801001663 intermolecular recognition site; other site 309801001664 dimerization interface [polypeptide binding]; other site 309801001665 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 309801001666 DNA binding site [nucleotide binding] 309801001667 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 309801001668 Protein phosphatase 2C; Region: PP2C; pfam00481 309801001669 active site 309801001670 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 309801001671 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 309801001672 RuvA N terminal domain; Region: RuvA_N; pfam01330 309801001673 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 309801001674 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 309801001675 histidinol dehydrogenase; Region: hisD; TIGR00069 309801001676 NAD binding site [chemical binding]; other site 309801001677 dimerization interface [polypeptide binding]; other site 309801001678 product binding site; other site 309801001679 substrate binding site [chemical binding]; other site 309801001680 zinc binding site [ion binding]; other site 309801001681 catalytic residues [active] 309801001682 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 309801001683 ATP phosphoribosyltransferase; Region: HisG; cl15266 309801001684 HisG, C-terminal domain; Region: HisG_C; cl06867 309801001685 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 309801001686 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 ATP-dependent...; Region: HisRS-like_core; cd00773 309801001687 dimer interface [polypeptide binding]; other site 309801001688 motif 1; other site 309801001689 motif 2; other site 309801001690 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 attaches...; Region: class_II_aaRS-like_core; cl00268 309801001691 motif 3; other site 309801001692 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 309801001693 anticodon binding site; other site 309801001694 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 309801001695 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 309801001696 putative tRNA-binding site [nucleotide binding]; other site 309801001697 B3/4 domain; Region: B3_4; cl11458 309801001698 tRNA synthetase B5 domain; Region: B5; cl08394 309801001699 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 309801001700 dimer interface [polypeptide binding]; other site 309801001701 motif 1; other site 309801001702 motif 3; other site 309801001703 motif 2; other site 309801001704 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 309801001705 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 309801001706 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 309801001707 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 309801001708 dimer interface [polypeptide binding]; other site 309801001709 motif 1; other site 309801001710 active site 309801001711 motif 2; other site 309801001712 motif 3; other site 309801001713 enolase; Provisional; Region: eno; PRK00077 309801001714 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 309801001715 dimer interface [polypeptide binding]; other site 309801001716 metal binding site [ion binding]; metal-binding site 309801001717 substrate binding pocket [chemical binding]; other site 309801001718 Sulfatase; Region: Sulfatase; cl10460 309801001719 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 309801001720 Dehydratase family; Region: ILVD_EDD; cl00340 309801001721 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 309801001722 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801001723 AIR carboxylase; Region: AIRC; cl00310 309801001724 isocitrate dehydrogenase; Validated; Region: PRK09222 309801001725 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 309801001726 hypothetical protein; Provisional; Region: PRK07233 309801001727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001728 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 309801001729 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 309801001730 Protein export membrane protein; Region: SecD_SecF; cl14618 309801001731 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 309801001732 Protein export membrane protein; Region: SecD_SecF; cl14618 309801001733 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 309801001734 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 309801001735 active site 309801001736 (T/H)XGH motif; other site 309801001737 DNA gyrase subunit A; Validated; Region: PRK05560 309801001738 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 in DNA...; Region: TOP4c; cd00187 309801001739 CAP-like domain; other site 309801001740 active site 309801001741 primary dimer interface [polypeptide binding]; other site 309801001742 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309801001743 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309801001744 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309801001745 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309801001746 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309801001747 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 309801001748 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 309801001749 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 309801001750 putative acyl-acceptor binding pocket; other site 309801001751 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 309801001752 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 309801001753 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 309801001754 putative active site [active] 309801001755 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 309801001756 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309801001757 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 309801001758 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 309801001759 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 309801001760 putative active site [active] 309801001761 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 309801001762 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 309801001763 putative active site [active] 309801001764 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 309801001765 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 309801001766 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 309801001767 GDP-binding site [chemical binding]; other site 309801001768 ACT binding site; other site 309801001769 IMP binding site; other site 309801001770 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 309801001771 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 309801001772 HSP70 interaction site [polypeptide binding]; other site 309801001773 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 309801001774 substrate binding site [polypeptide binding]; other site 309801001775 dimer interface [polypeptide binding]; other site 309801001776 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801001777 LexA repressor; Validated; Region: PRK00215 309801001778 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 309801001779 Catalytic site [active] 309801001780 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 309801001781 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 309801001782 Walker A/P-loop; other site 309801001783 ATP binding site [chemical binding]; other site 309801001784 Q-loop/lid; other site 309801001785 ABC transporter signature motif; other site 309801001786 Walker B; other site 309801001787 D-loop; other site 309801001788 H-loop/switch region; other site 309801001789 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 309801001790 Smr domain; Region: Smr; cl02619 309801001791 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 309801001792 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 309801001793 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 309801001794 ATP binding site [chemical binding]; other site 309801001795 putative Mg++ binding site [ion binding]; other site 309801001796 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 309801001797 nucleotide binding region [chemical binding]; other site 309801001798 ATP-binding site [chemical binding]; other site 309801001799 TRCF domain; Region: TRCF; cl04088 309801001800 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 309801001801 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 309801001802 Competence protein; Region: Competence; cl00471 309801001803 elongation factor Tu; Reviewed; Region: PRK00049 309801001804 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 309801001805 G1 box; other site 309801001806 GEF interaction site [polypeptide binding]; other site 309801001807 GTP/Mg2+ binding site [chemical binding]; other site 309801001808 Switch I region; other site 309801001809 G2 box; other site 309801001810 G3 box; other site 309801001811 Switch II region; other site 309801001812 G4 box; other site 309801001813 G5 box; other site 309801001814 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 309801001815 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 309801001816 Antibiotic Binding Site [chemical binding]; other site 309801001817 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 309801001818 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 309801001819 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 309801001820 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 309801001821 putative homodimer interface [polypeptide binding]; other site 309801001822 KOW motif; Region: KOW; cl00354 309801001823 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 309801001824 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 309801001825 23S rRNA interface [nucleotide binding]; other site 309801001826 L7/L12 interface [polypeptide binding]; other site 309801001827 putative thiostrepton binding site; other site 309801001828 L25 interface [polypeptide binding]; other site 309801001829 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 309801001830 mRNA/rRNA interface [nucleotide binding]; other site 309801001831 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 309801001832 23S rRNA interface [nucleotide binding]; other site 309801001833 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 309801001834 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 309801001835 core dimer interface [polypeptide binding]; other site 309801001836 peripheral dimer interface [polypeptide binding]; other site 309801001837 L10 interface [polypeptide binding]; other site 309801001838 L11 interface [polypeptide binding]; other site 309801001839 putative EF-Tu interaction site [polypeptide binding]; other site 309801001840 putative EF-G interaction site [polypeptide binding]; other site 309801001841 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 309801001842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801001843 active site 309801001844 phosphorylation site [posttranslational modification] 309801001845 intermolecular recognition site; other site 309801001846 dimerization interface [polypeptide binding]; other site 309801001847 ANTAR domain; Region: ANTAR; cl04297 309801001848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 309801001849 YbbR-like protein; Region: YbbR; pfam07949 309801001850 Uncharacterized conserved protein [Function unknown]; Region: COG1624 309801001851 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 309801001852 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 309801001853 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 309801001854 Walker A motif; other site 309801001855 ATP binding site [chemical binding]; other site 309801001856 Walker B motif; other site 309801001857 arginine finger; other site 309801001858 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 309801001859 replicative DNA helicase; Region: DnaB; TIGR00665 309801001860 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 309801001861 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 309801001862 Walker A motif; other site 309801001863 ATP binding site [chemical binding]; other site 309801001864 Walker B motif; other site 309801001865 DNA binding loops [nucleotide binding] 309801001866 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 309801001867 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 309801001868 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 309801001869 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 309801001870 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 309801001871 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 309801001872 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 309801001873 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 309801001874 active site 309801001875 HIGH motif; other site 309801001876 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 309801001877 KMSKS motif; other site 309801001878 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 309801001879 tRNA binding surface [nucleotide binding]; other site 309801001880 anticodon binding site; other site 309801001881 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 309801001882 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 309801001883 DNA polymerase I; Provisional; Region: PRK05755 309801001884 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 309801001885 active site 309801001886 metal binding site 1 [ion binding]; metal-binding site 309801001887 putative 5' ssDNA interaction site; other site 309801001888 metal binding site 3; metal-binding site 309801001889 metal binding site 2 [ion binding]; metal-binding site 309801001890 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 309801001891 putative DNA binding site [nucleotide binding]; other site 309801001892 putative metal binding site [ion binding]; other site 309801001893 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 309801001894 active site 309801001895 catalytic site [active] 309801001896 substrate binding site [chemical binding]; other site 309801001897 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 309801001898 active site 309801001899 DNA binding site [nucleotide binding] 309801001900 catalytic site [active] 309801001901 MoxR-like ATPases [General function prediction only]; Region: COG0714 309801001902 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 309801001903 Walker A motif; other site 309801001904 ATP binding site [chemical binding]; other site 309801001905 Walker B motif; other site 309801001906 arginine finger; other site 309801001907 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 309801001908 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 309801001909 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 309801001910 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 309801001911 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 309801001912 dimer interface [polypeptide binding]; other site 309801001913 substrate binding site [chemical binding]; other site 309801001914 ATP binding site [chemical binding]; other site 309801001915 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 309801001916 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 309801001917 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 309801001918 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 309801001919 Subunit I/III interface [polypeptide binding]; other site 309801001920 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 309801001921 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 309801001922 D-pathway; other site 309801001923 Putative ubiquinol binding site [chemical binding]; other site 309801001924 Low-spin heme (heme b) binding site [chemical binding]; other site 309801001925 Putative water exit pathway; other site 309801001926 Binuclear center (heme o3/CuB) [ion binding]; other site 309801001927 K-pathway; other site 309801001928 Putative proton exit pathway; other site 309801001929 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 309801001930 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801001931 Cytochrome c; Region: Cytochrom_C; cl11414 309801001932 acetyl-CoA synthetase; Provisional; Region: PRK00174 309801001933 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 309801001934 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801001935 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801001936 putative acyltransferase; Provisional; Region: PRK05790 309801001937 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 309801001938 dimer interface [polypeptide binding]; other site 309801001939 active site 309801001940 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 309801001941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801001942 Walker A/P-loop; other site 309801001943 ATP binding site [chemical binding]; other site 309801001944 Q-loop/lid; other site 309801001945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801001946 ABC transporter signature motif; other site 309801001947 Walker B; other site 309801001948 D-loop; other site 309801001949 H-loop/switch region; other site 309801001950 DNA polymerase III subunit beta; Validated; Region: PRK05643 309801001951 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 309801001952 putative DNA binding surface [nucleotide binding]; other site 309801001953 dimer interface [polypeptide binding]; other site 309801001954 beta-clamp/clamp loader binding surface; other site 309801001955 beta-clamp/translesion DNA polymerase binding surface; other site 309801001956 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 309801001957 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 309801001958 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801001959 catalytic residue [active] 309801001960 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 309801001961 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 309801001962 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 309801001963 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 309801001964 Walker A motif; other site 309801001965 ATP binding site [chemical binding]; other site 309801001966 Walker B motif; other site 309801001967 arginine finger; other site 309801001968 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 309801001969 Trm112p-like protein; Region: Trm112p; cl01066 309801001970 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 309801001971 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 309801001972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801001973 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 309801001974 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 formation of...; Region: AlaRS_core; cd00673 309801001975 motif 1; other site 309801001976 active site 309801001977 motif 2; other site 309801001978 motif 3; other site 309801001979 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 309801001980 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 includes...; Region: RuvC_resolvase; cl00243 309801001981 Nitrogen regulatory protein P-II; Region: P-II; cl00412 309801001982 potential protein location (hypothetical protein) that overlaps protein (Protein of unknown function (DUF970) superfamily) 309801001983 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 309801001984 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 309801001985 homodimer interface [polypeptide binding]; other site 309801001986 NADP binding site [chemical binding]; other site 309801001987 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 309801001988 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 309801001989 non-specific DNA binding site [nucleotide binding]; other site 309801001990 salt bridge; other site 309801001991 sequence-specific DNA binding site [nucleotide binding]; other site 309801001992 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 309801001993 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 309801001994 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 309801001995 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 309801001996 generic binding surface I; other site 309801001997 generic binding surface II; other site 309801001998 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801001999 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 309801002000 cyanophycin synthetase; Provisional; Region: PRK14016 309801002001 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801002002 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 309801002003 active site 309801002004 dimerization interface [polypeptide binding]; other site 309801002005 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 309801002006 active site 309801002007 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 309801002008 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 309801002009 glutaminase active site [active] 309801002010 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 309801002011 dimer interface [polypeptide binding]; other site 309801002012 active site 309801002013 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 309801002014 dimer interface [polypeptide binding]; other site 309801002015 active site 309801002016 adenylosuccinate lyase; Provisional; Region: PRK07492 309801002017 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 309801002018 tetramer interface [polypeptide binding]; other site 309801002019 active site 309801002020 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 309801002021 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 309801002022 ATP binding site [chemical binding]; other site 309801002023 active site 309801002024 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 309801002025 substrate binding site [chemical binding]; other site 309801002026 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 309801002027 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 309801002028 putative active site [active] 309801002029 catalytic triad [active] 309801002030 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 309801002031 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 309801002032 dimerization interface [polypeptide binding]; other site 309801002033 ATP binding site [chemical binding]; other site 309801002034 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 309801002035 dimerization interface [polypeptide binding]; other site 309801002036 ATP binding site [chemical binding]; other site 309801002037 amidophosphoribosyltransferase; Region: purF; TIGR01134 309801002038 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 309801002039 active site 309801002040 tetramer interface [polypeptide binding]; other site 309801002041 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801002042 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 309801002043 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 309801002044 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 309801002045 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 309801002046 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 309801002047 lipoyl attachment site [posttranslational modification]; other site 309801002048 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 309801002049 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 309801002050 tetramer interface [polypeptide binding]; other site 309801002051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801002052 catalytic residue [active] 309801002053 GTP-binding protein Der; Reviewed; Region: PRK00093 309801002054 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 309801002055 G1 box; other site 309801002056 GTP/Mg2+ binding site [chemical binding]; other site 309801002057 Switch I region; other site 309801002058 G2 box; other site 309801002059 Switch II region; other site 309801002060 G3 box; other site 309801002061 G4 box; other site 309801002062 G5 box; other site 309801002063 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 309801002064 G1 box; other site 309801002065 GTP/Mg2+ binding site [chemical binding]; other site 309801002066 Switch I region; other site 309801002067 G2 box; other site 309801002068 G3 box; other site 309801002069 Switch II region; other site 309801002070 G4 box; other site 309801002071 G5 box; other site 309801002072 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 309801002073 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 309801002074 dimer interface [polypeptide binding]; other site 309801002075 glycine-pyridoxal phosphate binding site [chemical binding]; other site 309801002076 active site 309801002077 folate binding site [chemical binding]; other site 309801002078 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 309801002079 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 309801002080 Mg++ binding site [ion binding]; other site 309801002081 putative catalytic motif [active] 309801002082 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 309801002083 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 309801002084 Peptidase family M48; Region: Peptidase_M48; cl12018 309801002085 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 309801002086 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 309801002087 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; cl14780 309801002088 active site 309801002089 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 309801002090 Liver alcohol dehydrogenase and related zinc-dependent alcohol dehydrogenases; Region: Zn_ADH1; cd05279 309801002091 NAD binding site [chemical binding]; other site 309801002092 substrate binding site [chemical binding]; other site 309801002093 catalytic Zn binding site [ion binding]; other site 309801002094 structural Zn binding site [ion binding]; other site 309801002095 dimer interface [polypeptide binding]; other site 309801002096 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 309801002097 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 309801002098 active site 309801002099 HIGH motif; other site 309801002100 dimer interface [polypeptide binding]; other site 309801002101 KMSKS motif; other site 309801002102 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 309801002103 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 309801002104 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 309801002105 active site 309801002106 Riboflavin kinase; Region: Flavokinase; cl03312 309801002107 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02755 309801002108 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 309801002109 RNA binding site [nucleotide binding]; other site 309801002110 active site 309801002111 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 309801002112 DHH family; Region: DHH; pfam01368 309801002113 DHHA1 domain; Region: DHHA1; pfam02272 309801002114 Ribosome-binding factor A; Region: RBFA; cl00542 309801002115 translation initiation factor IF-2; Region: IF-2; TIGR00487 309801002116 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 309801002117 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 309801002118 G1 box; other site 309801002119 putative GEF interaction site [polypeptide binding]; other site 309801002120 GTP/Mg2+ binding site [chemical binding]; other site 309801002121 Switch I region; other site 309801002122 G2 box; other site 309801002123 G3 box; other site 309801002124 Switch II region; other site 309801002125 G4 box; other site 309801002126 G5 box; other site 309801002127 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 309801002128 Translation-initiation factor 2; Region: IF-2; pfam11987 309801002129 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 309801002130 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 309801002131 putative RNA binding cleft [nucleotide binding]; other site 309801002132 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 309801002133 NusA N-terminal domain; Region: NusA_N; pfam08529 309801002134 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 309801002135 RNA binding site [nucleotide binding]; other site 309801002136 homodimer interface [polypeptide binding]; other site 309801002137 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 309801002138 G-X-X-G motif; other site 309801002139 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 309801002140 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 309801002141 phosphate binding site [ion binding]; other site 309801002142 putative substrate binding pocket [chemical binding]; other site 309801002143 dimer interface [polypeptide binding]; other site 309801002144 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 309801002145 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 309801002146 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 309801002147 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 309801002148 substrate binding site [chemical binding]; other site 309801002149 hinge regions; other site 309801002150 ADP binding site [chemical binding]; other site 309801002151 catalytic site [active] 309801002152 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 309801002153 substrate binding site [chemical binding]; other site 309801002154 dimer interface [polypeptide binding]; other site 309801002155 catalytic triad [active] 309801002156 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 309801002157 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 309801002158 peptide binding site [polypeptide binding]; other site 309801002159 dimer interface [polypeptide binding]; other site 309801002160 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 309801002161 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 309801002162 ATP binding site [chemical binding]; other site 309801002163 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 309801002164 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 309801002165 Catalytic site [active] 309801002166 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 309801002167 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 309801002168 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 309801002169 putative dimer interface [polypeptide binding]; other site 309801002170 [2Fe-2S] cluster binding site [ion binding]; other site 309801002171 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801002172 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 309801002173 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 309801002174 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 309801002175 ornithine cyclodeaminase; Validated; Region: PRK08618 309801002176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002177 glyoxylate reductase; Reviewed; Region: PRK13243 309801002178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002179 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 309801002180 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 309801002181 dimer interface [polypeptide binding]; other site 309801002182 active site 309801002183 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 309801002184 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 309801002185 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801002186 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 309801002187 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 309801002188 DNA binding residues [nucleotide binding] 309801002189 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 includes...; Region: RuvC_resolvase; cd00529 309801002190 active site 309801002191 putative DNA-binding cleft [nucleotide binding]; other site 309801002192 dimer interface [polypeptide binding]; other site 309801002193 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 309801002194 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 309801002195 RNA binding surface [nucleotide binding]; other site 309801002196 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; cl12011 309801002197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801002198 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 309801002199 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 309801002200 B12 binding site [chemical binding]; other site 309801002201 cobalt ligand [ion binding]; other site 309801002202 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801002203 Walker A motif; other site 309801002204 ATP binding site [chemical binding]; other site 309801002205 Walker B motif; other site 309801002206 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 309801002207 putative active site [active] 309801002208 catalytic residue [active] 309801002209 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 309801002210 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309801002211 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 309801002212 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 309801002213 S-adenosylmethionine binding site [chemical binding]; other site 309801002214 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 309801002215 Acylphosphatase; Region: Acylphosphatase; cl00551 309801002216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002217 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 309801002218 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 309801002219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002220 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 309801002221 putative carbohydrate kinase; Provisional; Region: PRK10565 309801002222 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 309801002223 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 309801002224 putative substrate binding site [chemical binding]; other site 309801002225 putative ATP binding site [chemical binding]; other site 309801002226 FOG: CBS domain [General function prediction only]; Region: COG0517 309801002227 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 309801002228 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 309801002229 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801002230 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 309801002231 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 309801002232 catalytic residue [active] 309801002233 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 309801002234 hypothetical protein; Provisional; Region: PRK07524 309801002235 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801002236 PYR/PP interface [polypeptide binding]; other site 309801002237 dimer interface [polypeptide binding]; other site 309801002238 TPP binding site [chemical binding]; other site 309801002239 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801002240 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 309801002241 TPP-binding site [chemical binding]; other site 309801002242 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 309801002243 Active_site [active] 309801002244 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 309801002245 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 309801002246 putative active site [active] 309801002247 substrate binding site [chemical binding]; other site 309801002248 putative cosubstrate binding site; other site 309801002249 catalytic site [active] 309801002250 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 309801002251 substrate binding site [chemical binding]; other site 309801002252 Uncharacterized membrane protein (DUF2298); Region: DUF2298; cl02250 309801002253 Uncharacterized membrane protein (DUF2298); Region: DUF2298; cl02250 309801002254 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 309801002255 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 309801002256 ribosomal protein L20; Region: rpl20; CHL00068 309801002257 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 309801002258 23S rRNA binding site [nucleotide binding]; other site 309801002259 L21 binding site [polypeptide binding]; other site 309801002260 L13 binding site [polypeptide binding]; other site 309801002261 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 309801002262 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 309801002263 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 309801002264 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 309801002265 IHF dimer interface [polypeptide binding]; other site 309801002266 IHF - DNA interface [nucleotide binding]; other site 309801002267 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 309801002268 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 309801002269 Mg2+ binding site [ion binding]; other site 309801002270 G-X-G motif; other site 309801002271 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 309801002272 anchoring element; other site 309801002273 dimer interface [polypeptide binding]; other site 309801002274 ATP binding site [chemical binding]; other site 309801002275 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 309801002276 active site 309801002277 putative metal-binding site [ion binding]; other site 309801002278 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 309801002279 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 309801002280 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 309801002281 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 309801002282 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 309801002283 O-Antigen ligase; Region: Wzy_C; cl04850 309801002284 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 309801002285 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 309801002286 NAD binding site [chemical binding]; other site 309801002287 putative substrate binding site 2 [chemical binding]; other site 309801002288 putative substrate binding site 1 [chemical binding]; other site 309801002289 active site 309801002290 O-Antigen ligase; Region: Wzy_C; cl04850 309801002291 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 309801002292 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309801002293 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 309801002294 MatE; Region: MatE; cl10513 309801002295 MatE; Region: MatE; cl10513 309801002296 Peptidase family M23; Region: Peptidase_M23; pfam01551 309801002297 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 309801002298 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 309801002299 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 309801002300 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 309801002301 GTP-binding protein LepA; Provisional; Region: PRK05433 309801002302 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 309801002303 G1 box; other site 309801002304 putative GEF interaction site [polypeptide binding]; other site 309801002305 GTP/Mg2+ binding site [chemical binding]; other site 309801002306 Switch I region; other site 309801002307 G2 box; other site 309801002308 G3 box; other site 309801002309 Switch II region; other site 309801002310 G4 box; other site 309801002311 G5 box; other site 309801002312 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 309801002313 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 309801002314 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 309801002315 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 309801002316 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12333 309801002317 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 309801002318 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 309801002319 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 309801002320 dimer interface [polypeptide binding]; other site 309801002321 anticodon binding site; other site 309801002322 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 attaches...; Region: class_II_aaRS-like_core; cl00268 309801002323 motif 1; other site 309801002324 dimer interface [polypeptide binding]; other site 309801002325 active site 309801002326 motif 2; other site 309801002327 GAD domain; Region: GAD; pfam02938 309801002328 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 the...; Region: AspRS_core; cd00777 309801002329 motif 3; other site 309801002330 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 309801002331 dimanganese center [ion binding]; other site 309801002332 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; cl09108 309801002333 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 309801002334 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 309801002335 G1 box; other site 309801002336 GTP/Mg2+ binding site [chemical binding]; other site 309801002337 Switch I region; other site 309801002338 G2 box; other site 309801002339 G3 box; other site 309801002340 Switch II region; other site 309801002341 G4 box; other site 309801002342 G5 box; other site 309801002343 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 309801002344 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 309801002345 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 309801002346 dimerization interface [polypeptide binding]; other site 309801002347 putative ATP binding site [chemical binding]; other site 309801002348 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cd00882 309801002349 G1 box; other site 309801002350 GTP/Mg2+ binding site [chemical binding]; other site 309801002351 G2 box; other site 309801002352 Switch I region; other site 309801002353 G3 box; other site 309801002354 Switch II region; other site 309801002355 G4 box; other site 309801002356 G5 box; other site 309801002357 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 309801002358 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 309801002359 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 309801002360 purine monophosphate binding site [chemical binding]; other site 309801002361 dimer interface [polypeptide binding]; other site 309801002362 putative catalytic residues [active] 309801002363 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 309801002364 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 309801002365 NurA domain; Region: NurA; cl09134 309801002366 Uncharacterised conserved protein (DUF2342); Region: DUF2342; cl02183 309801002367 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 309801002368 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 309801002369 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 309801002370 VanW like protein; Region: VanW; pfam04294 309801002371 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 309801002372 homotrimer interaction site [polypeptide binding]; other site 309801002373 putative active site [active] 309801002374 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 309801002375 domain; Region: GreA_GreB_N; pfam03449 309801002376 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 309801002377 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 309801002378 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 309801002379 dimer interface [polypeptide binding]; other site 309801002380 putative anticodon binding site; other site 309801002381 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 309801002382 motif 1; other site 309801002383 active site 309801002384 motif 2; other site 309801002385 motif 3; other site 309801002386 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 309801002387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801002388 dimer interface [polypeptide binding]; other site 309801002389 conserved gate region; other site 309801002390 putative PBP binding loops; other site 309801002391 ABC-ATPase subunit interface; other site 309801002392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801002393 dimer interface [polypeptide binding]; other site 309801002394 conserved gate region; other site 309801002395 putative PBP binding loops; other site 309801002396 ABC-ATPase subunit interface; other site 309801002397 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 309801002398 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 309801002399 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 309801002400 putative metal binding site [ion binding]; other site 309801002401 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 309801002402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002403 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 309801002404 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 309801002405 Walker A/P-loop; other site 309801002406 ATP binding site [chemical binding]; other site 309801002407 Q-loop/lid; other site 309801002408 ABC transporter signature motif; other site 309801002409 Walker B; other site 309801002410 D-loop; other site 309801002411 H-loop/switch region; other site 309801002412 TOBE domain; Region: TOBE_2; cl01440 309801002413 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 309801002414 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 309801002415 Uncharacterized conserved protein [Function unknown]; Region: COG5476 309801002416 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 309801002417 MlrC C-terminus; Region: MlrC_C; pfam07171 309801002418 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801002419 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 309801002420 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 309801002421 putative substrate translocation pore; other site 309801002422 Predicted dehydrogenase [General function prediction only]; Region: COG0579 309801002423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002424 FOG: CBS domain [General function prediction only]; Region: COG0517 309801002425 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 309801002426 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 309801002427 iron binding site [ion binding]; other site 309801002428 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 309801002429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002430 Protein of unknown function (DUF503); Region: DUF503; cl00669 309801002431 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 309801002432 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801002433 PYR/PP interface [polypeptide binding]; other site 309801002434 dimer interface [polypeptide binding]; other site 309801002435 TPP binding site [chemical binding]; other site 309801002436 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801002437 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 309801002438 TPP-binding site [chemical binding]; other site 309801002439 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 309801002440 FAD binding site [chemical binding]; other site 309801002441 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 309801002442 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 309801002443 Potassium binding sites [ion binding]; other site 309801002444 Cesium cation binding sites [ion binding]; other site 309801002445 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 309801002446 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 309801002447 NMT1/THI5 like; Region: NMT1; pfam09084 309801002448 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 309801002449 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 309801002450 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 309801002451 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 309801002452 N-terminal, non-catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_N_like; cd09013 309801002453 tetramer interface [polypeptide binding]; other site 309801002454 C-terminal, catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_C_like; cd09014 309801002455 tetramer interface [polypeptide binding]; other site 309801002456 active site 309801002457 metal binding site [ion binding]; metal-binding site 309801002458 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 309801002459 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 309801002460 putative active site [active] 309801002461 putative metal binding site [ion binding]; other site 309801002462 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 309801002463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002464 NAD(P) binding site [chemical binding]; other site 309801002465 active site 309801002466 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 309801002467 active site pocket [active] 309801002468 D-mannonate dehydratase (UxuA); Region: UxuA; pfam03786 309801002469 mannonate dehydratase; Region: uxuA; TIGR00695 309801002470 hypothetical protein; Provisional; Region: PRK07206 309801002471 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801002472 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 309801002473 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 309801002474 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 309801002475 NADP-binding site; other site 309801002476 homotetramer interface [polypeptide binding]; other site 309801002477 substrate binding site [chemical binding]; other site 309801002478 homodimer interface [polypeptide binding]; other site 309801002479 active site 309801002480 S-adenosylmethionine synthetase; Validated; Region: PRK05250 309801002481 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 309801002482 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 309801002483 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 309801002484 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 309801002485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801002486 oligomerization interface [polypeptide binding]; other site 309801002487 active site 309801002488 NAD+ binding site [chemical binding]; other site 309801002489 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 309801002490 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 309801002491 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 309801002492 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 309801002493 magnesium binding site [ion binding]; other site 309801002494 putative shikimate binding site; other site 309801002495 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 309801002496 active site 309801002497 dimer interface [polypeptide binding]; other site 309801002498 metal binding site [ion binding]; metal-binding site 309801002499 malate dehydrogenase; Reviewed; Region: PRK06223 309801002500 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 309801002501 NAD(P) binding site [chemical binding]; other site 309801002502 dimer interface [polypeptide binding]; other site 309801002503 tetramer (dimer of dimers) interface [polypeptide binding]; other site 309801002504 substrate binding site [chemical binding]; other site 309801002505 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 309801002506 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 309801002507 dimer interface [polypeptide binding]; other site 309801002508 putative functional site; other site 309801002509 putative MPT binding site; other site 309801002510 EamA-like transporter family; Region: EamA; cl01037 309801002511 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 309801002512 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 309801002513 FemAB family; Region: FemAB; cl11444 309801002514 FemAB family; Region: FemAB; cl11444 309801002515 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 309801002516 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 309801002517 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801002518 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309801002519 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 309801002520 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309801002521 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309801002522 potential protein location (hypothetical protein trd_0934 [Thermomicrobium roseum DSM 5159]) that overlaps RNA (tRNA-L) 309801002523 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801002524 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 309801002525 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 309801002526 active site 309801002527 metal binding site [ion binding]; metal-binding site 309801002528 Domain of unknown function DUF143; Region: DUF143; cl00519 309801002529 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 309801002530 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 309801002531 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 309801002532 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 309801002533 active site 309801002534 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 309801002535 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 309801002536 DNA binding residues [nucleotide binding] 309801002537 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 A site; Region: RaiA; cl00250 309801002538 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 309801002539 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 309801002540 putative dimer interface [polypeptide binding]; other site 309801002541 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 309801002542 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 309801002543 active site 309801002544 dimer interface [polypeptide binding]; other site 309801002545 effector binding site; other site 309801002546 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801002547 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 309801002548 putative active site pocket [active] 309801002549 cleavage site 309801002550 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 309801002551 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 309801002552 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 309801002553 23S rRNA interface [nucleotide binding]; other site 309801002554 L3 interface [polypeptide binding]; other site 309801002555 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 309801002556 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 309801002557 dimerization interface 3.5A [polypeptide binding]; other site 309801002558 active site 309801002559 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 309801002560 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 309801002561 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 309801002562 alphaNTD homodimer interface [polypeptide binding]; other site 309801002563 alphaNTD - beta interaction site [polypeptide binding]; other site 309801002564 alphaNTD - beta' interaction site [polypeptide binding]; other site 309801002565 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 309801002566 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 309801002567 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 309801002568 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 309801002569 RNA binding surface [nucleotide binding]; other site 309801002570 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 309801002571 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 309801002572 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 309801002573 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 309801002574 rRNA binding site [nucleotide binding]; other site 309801002575 predicted 30S ribosome binding site; other site 309801002576 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 309801002577 active site 309801002578 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 309801002579 adenylate kinase; Reviewed; Region: adk; PRK00279 309801002580 AMP-binding site [chemical binding]; other site 309801002581 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 309801002582 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 309801002583 SecY translocase; Region: SecY; pfam00344 309801002584 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 309801002585 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 309801002586 23S rRNA binding site [nucleotide binding]; other site 309801002587 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 309801002588 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 309801002589 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 309801002590 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 309801002591 23S rRNA interface [nucleotide binding]; other site 309801002592 5S rRNA interface [nucleotide binding]; other site 309801002593 L27 interface [polypeptide binding]; other site 309801002594 L5 interface [polypeptide binding]; other site 309801002595 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 309801002596 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 309801002597 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 309801002598 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 309801002599 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 309801002600 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 309801002601 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 309801002602 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 309801002603 KOW motif; Region: KOW; cl00354 309801002604 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 309801002605 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 309801002606 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; cl09943 309801002607 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 309801002608 23S rRNA interface [nucleotide binding]; other site 309801002609 5S rRNA interface [nucleotide binding]; other site 309801002610 putative antibiotic binding site [chemical binding]; other site 309801002611 L25 interface [polypeptide binding]; other site 309801002612 L27 interface [polypeptide binding]; other site 309801002613 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 309801002614 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 309801002615 G-X-X-G motif; other site 309801002616 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 309801002617 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 309801002618 protein-rRNA interface [nucleotide binding]; other site 309801002619 putative translocon binding site; other site 309801002620 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 309801002621 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 309801002622 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 309801002623 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 309801002624 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 309801002625 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 309801002626 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 309801002627 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 309801002628 elongation factor Tu; Reviewed; Region: PRK00049 309801002629 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 309801002630 G1 box; other site 309801002631 GEF interaction site [polypeptide binding]; other site 309801002632 GTP/Mg2+ binding site [chemical binding]; other site 309801002633 Switch I region; other site 309801002634 G2 box; other site 309801002635 G3 box; other site 309801002636 Switch II region; other site 309801002637 G4 box; other site 309801002638 G5 box; other site 309801002639 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 309801002640 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 309801002641 Antibiotic Binding Site [chemical binding]; other site 309801002642 elongation factor G; Reviewed; Region: PRK00007 309801002643 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 309801002644 G1 box; other site 309801002645 putative GEF interaction site [polypeptide binding]; other site 309801002646 GTP/Mg2+ binding site [chemical binding]; other site 309801002647 Switch I region; other site 309801002648 G2 box; other site 309801002649 G3 box; other site 309801002650 Switch II region; other site 309801002651 G4 box; other site 309801002652 G5 box; other site 309801002653 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 309801002654 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 309801002655 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 309801002656 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 309801002657 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 309801002658 16S rRNA interaction site [nucleotide binding]; other site 309801002659 streptomycin interaction site [chemical binding]; other site 309801002660 23S rRNA interaction site [nucleotide binding]; other site 309801002661 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 309801002662 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 309801002663 cell division protein MukB; Provisional; Region: mukB; PRK04863 309801002664 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 309801002665 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 309801002666 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 309801002667 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 309801002668 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 309801002669 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 309801002670 G-loop; other site 309801002671 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 309801002672 DNA binding site [nucleotide binding] 309801002673 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 309801002674 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 309801002675 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; cl04593 309801002676 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 309801002677 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; cl04593 309801002678 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 309801002679 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 309801002680 RPB1 interaction site [polypeptide binding]; other site 309801002681 RPB10 interaction site [polypeptide binding]; other site 309801002682 RPB11 interaction site [polypeptide binding]; other site 309801002683 RPB3 interaction site [polypeptide binding]; other site 309801002684 RPB12 interaction site [polypeptide binding]; other site 309801002685 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 309801002686 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 309801002687 Bacterial SH3 domain; Region: SH3_3; cl02551 309801002688 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 309801002689 rRNA interaction site [nucleotide binding]; other site 309801002690 S8 interaction site; other site 309801002691 putative laminin-1 binding site; other site 309801002692 elongation factor Ts; Reviewed; Region: tsf; PRK12332 309801002693 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 309801002694 Elongation factor TS; Region: EF_TS; pfam00889 309801002695 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 309801002696 putative nucleotide binding site [chemical binding]; other site 309801002697 uridine monophosphate binding site [chemical binding]; other site 309801002698 homohexameric interface [polypeptide binding]; other site 309801002699 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 round of...; Region: RRF; cd00520 309801002700 hinge region; other site 309801002701 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 309801002702 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 309801002703 catalytic residue [active] 309801002704 putative FPP diphosphate binding site; other site 309801002705 putative FPP binding hydrophobic cleft; other site 309801002706 dimer interface [polypeptide binding]; other site 309801002707 putative IPP diphosphate binding site; other site 309801002708 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 309801002709 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 309801002710 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 309801002711 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 309801002712 potential protein location (conserved hypothetical protein) that overlaps protein (hypothetical protein) 309801002713 potential protein location (hypothetical protein) that overlaps protein (conserved hypothetical protein) 309801002714 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 309801002715 Copper resistance protein CopC; Region: CopC; cl01012 309801002716 Copper resistance protein D; Region: CopD; cl00563 309801002717 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 309801002718 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 309801002719 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 309801002720 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 309801002721 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 309801002722 ATP binding site [chemical binding]; other site 309801002723 Walker A motif; other site 309801002724 hexamer interface [polypeptide binding]; other site 309801002725 Walker B motif; other site 309801002726 Response regulator receiver domain; Region: Response_reg; pfam00072 309801002727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801002728 active site 309801002729 phosphorylation site [posttranslational modification] 309801002730 intermolecular recognition site; other site 309801002731 dimerization interface [polypeptide binding]; other site 309801002732 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 309801002733 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 309801002734 SAF domain; Region: SAF; cl00555 309801002735 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 309801002736 Peptidase C26; Region: Peptidase_C26; pfam07722 309801002737 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 309801002738 catalytic triad [active] 309801002739 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 309801002740 Found in ATP-dependent protease La (LON); Region: LON; smart00464 309801002741 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 309801002742 Walker A motif; other site 309801002743 ATP binding site [chemical binding]; other site 309801002744 Walker B motif; other site 309801002745 arginine finger; other site 309801002746 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 309801002747 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 309801002748 putative dimer interface [polypeptide binding]; other site 309801002749 UbiA prenyltransferase family; Region: UbiA; cl00337 309801002750 Uncharacterized conserved protein [Function unknown]; Region: COG1306 309801002751 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 309801002752 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 309801002753 substrate binding pocket [chemical binding]; other site 309801002754 chain length determination region; other site 309801002755 substrate-Mg2+ binding site; other site 309801002756 catalytic residues [active] 309801002757 aspartate-rich region 1; other site 309801002758 active site lid residues [active] 309801002759 aspartate-rich region 2; other site 309801002760 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 309801002761 active site 309801002762 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 309801002763 MOFRL family; Region: MOFRL; cl01013 309801002764 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 309801002765 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 309801002766 RNA binding surface [nucleotide binding]; other site 309801002767 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 309801002768 active site 309801002769 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 309801002770 DNA repair protein RadA; Provisional; Region: PRK11823 309801002771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801002772 Walker A motif; other site 309801002773 ATP binding site [chemical binding]; other site 309801002774 Walker B motif; other site 309801002775 Clp protease ATP binding subunit; Region: clpC; CHL00095 309801002776 Clp amino terminal domain; Region: Clp_N; pfam02861 309801002777 Clp amino terminal domain; Region: Clp_N; pfam02861 309801002778 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 309801002779 Walker A motif; other site 309801002780 ATP binding site [chemical binding]; other site 309801002781 Walker B motif; other site 309801002782 arginine finger; other site 309801002783 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 309801002784 Walker A motif; other site 309801002785 ATP binding site [chemical binding]; other site 309801002786 Walker B motif; other site 309801002787 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 309801002788 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 309801002789 RNA binding site [nucleotide binding]; other site 309801002790 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 309801002791 RNA binding site [nucleotide binding]; other site 309801002792 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 309801002793 RNA binding site [nucleotide binding]; other site 309801002794 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 309801002795 RNA binding site [nucleotide binding]; other site 309801002796 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 309801002797 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 309801002798 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801002799 catalytic residue [active] 309801002800 O-Antigen ligase; Region: Wzy_C; cl04850 309801002801 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 309801002802 dimerization interface [polypeptide binding]; other site 309801002803 putative DNA binding site [nucleotide binding]; other site 309801002804 putative Zn2+ binding site [ion binding]; other site 309801002805 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 309801002806 dimerization interface [polypeptide binding]; other site 309801002807 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 309801002808 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 309801002809 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 309801002810 FeS/SAM binding site; other site 309801002811 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 309801002812 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 309801002813 histidyl-tRNA synthetase; Region: hisS; TIGR00442 309801002814 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 ATP-dependent...; Region: HisRS-like_core; cd00773 309801002815 dimer interface [polypeptide binding]; other site 309801002816 motif 1; other site 309801002817 active site 309801002818 motif 2; other site 309801002819 motif 3; other site 309801002820 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 309801002821 anticodon binding site; other site 309801002822 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 309801002823 MPT binding site; other site 309801002824 trimer interface [polypeptide binding]; other site 309801002825 peptidase; Reviewed; Region: PRK13004 309801002826 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 309801002827 putative metal binding site [ion binding]; other site 309801002828 putative dimer interface [polypeptide binding]; other site 309801002829 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 309801002830 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 309801002831 RNA/DNA hybrid binding site [nucleotide binding]; other site 309801002832 active site 309801002833 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 309801002834 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 309801002835 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 309801002836 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 309801002837 FAD binding site [chemical binding]; other site 309801002838 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309801002839 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801002840 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 309801002841 DNA binding residues [nucleotide binding] 309801002842 Anti-sigma-K factor rskA; Region: RskA; cl15366 309801002843 ParB-like partition proteins; Region: parB_part; TIGR00180 309801002844 ParB-like nuclease domain; Region: ParBc; cl02129 309801002845 KorB domain; Region: KorB; pfam08535 309801002846 glycyl-tRNA synthetase; Provisional; Region: PRK04173 309801002847 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 attaches...; Region: class_II_aaRS-like_core; cl00268 309801002848 motif 1; other site 309801002849 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 309801002850 active site 309801002851 motif 2; other site 309801002852 motif 3; other site 309801002853 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 309801002854 anticodon binding site; other site 309801002855 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 309801002856 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 309801002857 DNA binding site [nucleotide binding] 309801002858 Int/Topo IB signature motif; other site 309801002859 active site 309801002860 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 309801002861 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 309801002862 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 309801002863 NAD(P) binding site [chemical binding]; other site 309801002864 RIP metalloprotease RseP; Region: TIGR00054 309801002865 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 309801002866 active site 309801002867 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 309801002868 protein binding site [polypeptide binding]; other site 309801002869 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 309801002870 protein binding site [polypeptide binding]; other site 309801002871 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 309801002872 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 309801002873 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 309801002874 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 309801002875 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 309801002876 substrate binding site [chemical binding]; other site 309801002877 ATP binding site [chemical binding]; other site 309801002878 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 309801002879 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 309801002880 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 309801002881 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 309801002882 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 309801002883 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 309801002884 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 309801002885 oligomer interface [polypeptide binding]; other site 309801002886 active site 309801002887 metal binding site [ion binding]; metal-binding site 309801002888 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G_bact; cd04170 309801002889 G1 box; other site 309801002890 elongation factor G; Reviewed; Region: PRK12740 309801002891 putative GEF interaction site [polypeptide binding]; other site 309801002892 GTP/Mg2+ binding site [chemical binding]; other site 309801002893 Switch I region; other site 309801002894 G2 box; other site 309801002895 G3 box; other site 309801002896 Switch II region; other site 309801002897 G4 box; other site 309801002898 G5 box; other site 309801002899 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 309801002900 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 309801002901 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 309801002902 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 309801002903 RNA/DNA hybrid binding site [nucleotide binding]; other site 309801002904 active site 309801002905 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 309801002906 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 309801002907 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 309801002908 active site 309801002909 dimer interface [polypeptide binding]; other site 309801002910 motif 1; other site 309801002911 motif 2; other site 309801002912 motif 3; other site 309801002913 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 309801002914 anticodon binding site; other site 309801002915 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 309801002916 active site 309801002917 dimer interface [polypeptide binding]; other site 309801002918 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 309801002919 S-adenosylmethionine binding site [chemical binding]; other site 309801002920 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 309801002921 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 309801002922 active site 309801002923 motif I; other site 309801002924 motif II; other site 309801002925 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 309801002926 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 309801002927 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 309801002928 metal binding site [ion binding]; metal-binding site 309801002929 dimer interface [polypeptide binding]; other site 309801002930 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 309801002931 ABC-2 type transporter; Region: ABC2_membrane; cl11417 309801002932 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801002933 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 309801002934 Walker A/P-loop; other site 309801002935 ATP binding site [chemical binding]; other site 309801002936 Q-loop/lid; other site 309801002937 ABC transporter signature motif; other site 309801002938 Walker B; other site 309801002939 D-loop; other site 309801002940 H-loop/switch region; other site 309801002941 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801002942 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 309801002943 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 309801002944 Ligand Binding Site [chemical binding]; other site 309801002945 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 309801002946 trimer interface [polypeptide binding]; other site 309801002947 dimer interface [polypeptide binding]; other site 309801002948 putative active site [active] 309801002949 putative aminotransferase; Validated; Region: PRK07480 309801002950 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 309801002951 inhibitor-cofactor binding pocket; inhibition site 309801002952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801002953 catalytic residue [active] 309801002954 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 309801002955 domain; Region: GreA_GreB_N; pfam03449 309801002956 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 309801002957 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 309801002958 putative deacylase active site [active] 309801002959 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 309801002960 substrate binding site [chemical binding]; other site 309801002961 ATP binding site [chemical binding]; other site 309801002962 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 309801002963 G-X-X-G motif; other site 309801002964 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 309801002965 RxxxH motif; other site 309801002966 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 309801002967 Domain of unknown function DUF37; Region: DUF37; cl00506 309801002968 Ribonuclease P; Region: Ribonuclease_P; cl00457 309801002969 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 309801002970 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 309801002971 GAF domain; Region: GAF; cl00853 309801002972 GAF domain; Region: GAF; cl00853 309801002973 GAF domain; Region: GAF; cl00853 309801002974 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309801002975 Zn2+ binding site [ion binding]; other site 309801002976 Mg2+ binding site [ion binding]; other site 309801002977 GAF domain; Region: GAF; cl00853 309801002978 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 309801002979 putative substrate translocation pore; other site 309801002980 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 309801002981 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 309801002982 active site 309801002983 HIGH motif; other site 309801002984 nucleotide binding site [chemical binding]; other site 309801002985 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 309801002986 active site 309801002987 KMSKS motif; other site 309801002988 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 309801002989 tRNA binding surface [nucleotide binding]; other site 309801002990 anticodon binding site; other site 309801002991 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 309801002992 S-adenosylmethionine binding site [chemical binding]; other site 309801002993 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 309801002994 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 309801002995 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 309801002996 active site 309801002997 ADP/pyrophosphate binding site [chemical binding]; other site 309801002998 dimerization interface [polypeptide binding]; other site 309801002999 allosteric effector site; other site 309801003000 fructose-1,6-bisphosphate binding site; other site 309801003001 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 309801003002 aspartate racemase; Region: asp_race; TIGR00035 309801003003 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 309801003004 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 309801003005 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 309801003006 Cu(I) binding site [ion binding]; other site 309801003007 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 309801003008 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 309801003009 inhibitor-cofactor binding pocket; inhibition site 309801003010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801003011 catalytic residue [active] 309801003012 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 309801003013 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 309801003014 active site 309801003015 dimer interface [polypeptide binding]; other site 309801003016 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 309801003017 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 309801003018 active site 309801003019 FMN binding site [chemical binding]; other site 309801003020 substrate binding site [chemical binding]; other site 309801003021 3Fe-4S cluster binding site [ion binding]; other site 309801003022 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 309801003023 domain interface; other site 309801003024 Nitrogen regulatory protein P-II; Region: P-II; cl00412 309801003025 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 309801003026 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 309801003027 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801003028 putative substrate translocation pore; other site 309801003029 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 309801003030 MutS domain I; Region: MutS_I; pfam01624 309801003031 MutS domain II; Region: MutS_II; pfam05188 309801003032 MutS family domain IV; Region: MutS_IV; pfam05190 309801003033 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 309801003034 Walker A/P-loop; other site 309801003035 ATP binding site [chemical binding]; other site 309801003036 Q-loop/lid; other site 309801003037 ABC transporter signature motif; other site 309801003038 Walker B; other site 309801003039 D-loop; other site 309801003040 H-loop/switch region; other site 309801003041 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 309801003042 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 309801003043 Sodium:solute symporter family; Region: SSF; cl00456 309801003044 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 309801003045 active site 309801003046 substrate binding site [chemical binding]; other site 309801003047 catalytic site [active] 309801003048 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 309801003049 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 309801003050 ligand binding site [chemical binding]; other site 309801003051 flexible hinge region; other site 309801003052 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 309801003053 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 309801003054 metal binding triad; other site 309801003055 acetyl-CoA synthetase; Provisional; Region: PRK00174 309801003056 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 309801003057 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801003058 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801003059 Penicillin amidase; Region: Penicil_amidase; pfam01804 309801003060 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 309801003061 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 309801003062 active site 309801003063 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 309801003064 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 309801003065 DXD motif; other site 309801003066 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 309801003067 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 309801003068 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 309801003069 tRNA; other site 309801003070 putative tRNA binding site [nucleotide binding]; other site 309801003071 putative NADP binding site [chemical binding]; other site 309801003072 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 309801003073 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 309801003074 inhibitor-cofactor binding pocket; inhibition site 309801003075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801003076 catalytic residue [active] 309801003077 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 309801003078 dimer interface [polypeptide binding]; other site 309801003079 active site 309801003080 Schiff base residues; other site 309801003081 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 309801003082 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; cl03189 309801003083 domain interfaces; other site 309801003084 active site 309801003085 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 309801003086 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 309801003087 active site 309801003088 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 309801003089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003090 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 309801003091 homodecamer interface [polypeptide binding]; other site 309801003092 GTP cyclohydrolase I; Provisional; Region: PLN03044 309801003093 active site 309801003094 putative catalytic site residues [active] 309801003095 zinc binding site [ion binding]; other site 309801003096 GTP-CH-I/GFRP interaction surface; other site 309801003097 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 309801003098 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 309801003099 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; cl09155 309801003100 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 309801003101 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 309801003102 ATP binding site [chemical binding]; other site 309801003103 Mg++ binding site [ion binding]; other site 309801003104 motif III; other site 309801003105 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 309801003106 nucleotide binding region [chemical binding]; other site 309801003107 ATP-binding site [chemical binding]; other site 309801003108 DbpA RNA binding domain; Region: DbpA; pfam03880 309801003109 Domain of unknown function DUF28; Region: DUF28; cl00361 309801003110 Protein of unknown function (DUF421); Region: DUF421; cl00990 309801003111 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 309801003112 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 309801003113 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 309801003114 Walker A/P-loop; other site 309801003115 ATP binding site [chemical binding]; other site 309801003116 Q-loop/lid; other site 309801003117 ABC transporter signature motif; other site 309801003118 Walker B; other site 309801003119 D-loop; other site 309801003120 H-loop/switch region; other site 309801003121 TOBE domain; Region: TOBE_2; cl01440 309801003122 TOBE domain; Region: TOBE_2; cl01440 309801003123 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 309801003124 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801003125 dimer interface [polypeptide binding]; other site 309801003126 conserved gate region; other site 309801003127 putative PBP binding loops; other site 309801003128 ABC-ATPase subunit interface; other site 309801003129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 309801003130 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 309801003131 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 309801003132 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 309801003133 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 309801003134 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801003135 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801003136 Domain of unknown function (DUF385); Region: DUF385; cl04387 309801003137 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 309801003138 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 309801003139 putative active site [active] 309801003140 catalytic residue [active] 309801003141 Phosphomevalonate kinase; Region: P-mevalo_kinase; cl04466 309801003142 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 309801003143 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 309801003144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003145 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 309801003146 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 309801003147 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 309801003148 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 309801003149 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 309801003150 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 309801003151 putative active site [active] 309801003152 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 309801003153 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 309801003154 Protein of unknown function (DUF420); Region: DUF420; cl00989 309801003155 Sulfatase; Region: Sulfatase; cl10460 309801003156 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 309801003157 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 309801003158 Walker A/P-loop; other site 309801003159 ATP binding site [chemical binding]; other site 309801003160 Q-loop/lid; other site 309801003161 ABC transporter signature motif; other site 309801003162 Walker B; other site 309801003163 D-loop; other site 309801003164 H-loop/switch region; other site 309801003165 ABC-2 type transporter; Region: ABC2_membrane; cl11417 309801003166 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 309801003167 homodimer interaction site [polypeptide binding]; other site 309801003168 cofactor binding site; other site 309801003169 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 309801003170 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 309801003171 Moco binding site; other site 309801003172 metal coordination site [ion binding]; other site 309801003173 dimerization interface [polypeptide binding]; other site 309801003174 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 309801003175 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 309801003176 5S rRNA interface [nucleotide binding]; other site 309801003177 CTC domain interface [polypeptide binding]; other site 309801003178 L16 interface [polypeptide binding]; other site 309801003179 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; cl11420 309801003180 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 309801003181 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801003182 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 309801003183 active site lid residues [active] 309801003184 substrate binding pocket [chemical binding]; other site 309801003185 catalytic residues [active] 309801003186 substrate-Mg2+ binding site; other site 309801003187 aspartate-rich region 1; other site 309801003188 aspartate-rich region 2; other site 309801003189 Esterase/lipase [General function prediction only]; Region: COG1647 309801003190 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801003191 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801003192 active site 309801003193 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801003194 Protein of unknown function (DUF422); Region: DUF422; cl00991 309801003195 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 309801003196 putative acyl-acceptor binding pocket; other site 309801003197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003198 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 309801003199 LytB protein; Region: LYTB; cl00507 309801003200 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 309801003201 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 309801003202 FAD binding domain; Region: FAD_binding_4; pfam01565 309801003203 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 309801003204 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 309801003205 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 309801003206 Walker A motif; other site 309801003207 ATP binding site [chemical binding]; other site 309801003208 Walker B motif; other site 309801003209 arginine finger; other site 309801003210 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 309801003211 DnaA box-binding interface [nucleotide binding]; other site 309801003212 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801003213 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801003214 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 309801003215 putative substrate translocation pore; other site 309801003216 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 309801003217 OsmC-like protein; Region: OsmC; cl00767 309801003218 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 309801003219 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 309801003220 active site residue [active] 309801003221 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 309801003222 active site residue [active] 309801003223 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 309801003224 trimerization site [polypeptide binding]; other site 309801003225 active site 309801003226 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 309801003227 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 309801003228 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 309801003229 Uncharacterized conserved protein [Function unknown]; Region: COG0327 309801003230 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 309801003231 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 309801003232 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 309801003233 active site 309801003234 substrate binding site [chemical binding]; other site 309801003235 metal binding site [ion binding]; metal-binding site 309801003236 Protein of unknown function (DUF402); Region: DUF402; cl00979 309801003237 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 309801003238 DNA binding residues [nucleotide binding] 309801003239 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 309801003240 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 309801003241 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 309801003242 catalytic residue [active] 309801003243 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 309801003244 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 309801003245 active site 309801003246 substrate binding site [chemical binding]; other site 309801003247 cosubstrate binding site; other site 309801003248 catalytic site [active] 309801003249 GMP synthase; Reviewed; Region: guaA; PRK00074 309801003250 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 309801003251 AMP/PPi binding site [chemical binding]; other site 309801003252 candidate oxyanion hole; other site 309801003253 catalytic triad [active] 309801003254 potential glutamine specificity residues [chemical binding]; other site 309801003255 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 309801003256 ATP Binding subdomain [chemical binding]; other site 309801003257 Ligand Binding sites [chemical binding]; other site 309801003258 Dimerization subdomain; other site 309801003259 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 309801003260 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 309801003261 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801003262 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 309801003263 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309801003264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801003265 active site 309801003266 phosphorylation site [posttranslational modification] 309801003267 intermolecular recognition site; other site 309801003268 dimerization interface [polypeptide binding]; other site 309801003269 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309801003270 DNA binding residues [nucleotide binding] 309801003271 dimerization interface [polypeptide binding]; other site 309801003272 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 309801003273 dimer interface [polypeptide binding]; other site 309801003274 ADP-ribose binding site [chemical binding]; other site 309801003275 active site 309801003276 nudix motif; other site 309801003277 metal binding site [ion binding]; metal-binding site 309801003278 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 309801003279 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 309801003280 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 309801003281 active site 309801003282 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 309801003283 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 309801003284 BtpA family; Region: BtpA; cl00440 309801003285 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 309801003286 DHH family; Region: DHH; pfam01368 309801003287 DHHA1 domain; Region: DHHA1; pfam02272 309801003288 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 309801003289 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801003290 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 309801003291 FeoA domain; Region: FeoA; cl00838 309801003292 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801003293 active site 309801003294 metal binding site [ion binding]; metal-binding site 309801003295 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 309801003296 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 309801003297 substrate binding pocket [chemical binding]; other site 309801003298 chain length determination region; other site 309801003299 substrate-Mg2+ binding site; other site 309801003300 catalytic residues [active] 309801003301 aspartate-rich region 1; other site 309801003302 active site lid residues [active] 309801003303 aspartate-rich region 2; other site 309801003304 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 309801003305 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 309801003306 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 309801003307 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 309801003308 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 309801003309 Walker A motif; other site 309801003310 ATP binding site [chemical binding]; other site 309801003311 Walker B motif; other site 309801003312 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 309801003313 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 309801003314 oligomer interface [polypeptide binding]; other site 309801003315 active site residues [active] 309801003316 trigger factor; Provisional; Region: tig; PRK01490 309801003317 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 309801003318 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 309801003319 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: PI3Kc_like; cl00119 309801003320 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 309801003321 putative hydrophobic ligand binding site [chemical binding]; other site 309801003322 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 309801003323 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 309801003324 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 309801003325 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801003326 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801003327 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 309801003328 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 309801003329 MoxR-like ATPases [General function prediction only]; Region: COG0714 309801003330 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 309801003331 metal ion-dependent adhesion site (MIDAS); other site 309801003332 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 309801003333 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 309801003334 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 309801003335 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 309801003336 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 309801003337 Ligand binding site; other site 309801003338 metal-binding site 309801003339 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 309801003340 nudix motif; other site 309801003341 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 309801003342 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801003343 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801003344 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 309801003345 CcmB protein; Region: CcmB; cl01016 309801003346 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 309801003347 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 309801003348 Walker A/P-loop; other site 309801003349 ATP binding site [chemical binding]; other site 309801003350 Q-loop/lid; other site 309801003351 ABC transporter signature motif; other site 309801003352 Walker B; other site 309801003353 D-loop; other site 309801003354 H-loop/switch region; other site 309801003355 Cytochrome C biogenesis protein; Region: CcmH; cl01179 309801003356 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 309801003357 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 309801003358 CcmE; Region: CcmE; cl00994 309801003359 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 309801003360 catalytic residues [active] 309801003361 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 309801003362 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 309801003363 hinge; other site 309801003364 active site 309801003365 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 309801003366 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 309801003367 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 309801003368 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 309801003369 alpha subunit interaction interface [polypeptide binding]; other site 309801003370 Walker A motif; other site 309801003371 ATP binding site [chemical binding]; other site 309801003372 Walker B motif; other site 309801003373 inhibitor binding site; inhibition site 309801003374 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 309801003375 ATP synthase; Region: ATP-synt; cl00365 309801003376 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 309801003377 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 309801003378 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 309801003379 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 309801003380 beta subunit interaction interface [polypeptide binding]; other site 309801003381 Walker A motif; other site 309801003382 ATP binding site [chemical binding]; other site 309801003383 Walker B motif; other site 309801003384 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 309801003385 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 309801003386 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 309801003387 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 309801003388 Plant ATP synthase F0; Region: YMF19; cl07975 309801003389 ATP synthase subunit C; Region: ATP-synt_C; cl00466 309801003390 ATP synthase A chain; Region: ATP-synt_A; cl00413 309801003391 CTP synthetase; Validated; Region: pyrG; PRK05380 309801003392 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 309801003393 Catalytic site [active] 309801003394 active site 309801003395 UTP binding site [chemical binding]; other site 309801003396 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 309801003397 active site 309801003398 putative oxyanion hole; other site 309801003399 catalytic triad [active] 309801003400 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801003401 RecX family; Region: RecX; cl00936 309801003402 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 309801003403 putative active site [active] 309801003404 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 309801003405 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 309801003406 HIGH motif; other site 309801003407 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 309801003408 active site 309801003409 KMSKS motif; other site 309801003410 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 309801003411 tRNA binding surface [nucleotide binding]; other site 309801003412 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 309801003413 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 309801003414 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 309801003415 FeS/SAM binding site; other site 309801003416 TRAM domain; Region: TRAM; cl01282 309801003417 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 309801003418 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 309801003419 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 309801003420 PPIC-type PPIASE domain; Region: Rotamase; cl08278 309801003421 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 309801003422 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 309801003423 dimer interface [polypeptide binding]; other site 309801003424 ssDNA binding site [nucleotide binding]; other site 309801003425 tetramer (dimer of dimers) interface [polypeptide binding]; other site 309801003426 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 309801003427 homoserine kinase; Provisional; Region: PRK01212 309801003428 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 309801003429 threonine synthase; Validated; Region: PRK06260 309801003430 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 309801003431 homodimer interface [polypeptide binding]; other site 309801003432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801003433 catalytic residue [active] 309801003434 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 309801003435 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 309801003436 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801003437 dimer interface [polypeptide binding]; other site 309801003438 conserved gate region; other site 309801003439 putative PBP binding loops; other site 309801003440 ABC-ATPase subunit interface; other site 309801003441 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801003442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801003443 dimer interface [polypeptide binding]; other site 309801003444 conserved gate region; other site 309801003445 putative PBP binding loops; other site 309801003446 ABC-ATPase subunit interface; other site 309801003447 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 309801003448 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 309801003449 peptide binding site [polypeptide binding]; other site 309801003450 dimer interface [polypeptide binding]; other site 309801003451 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 309801003452 glycogen synthase; Provisional; Region: glgA; PRK00654 309801003453 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 309801003454 ADP-binding pocket [chemical binding]; other site 309801003455 homodimer interface [polypeptide binding]; other site 309801003456 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 309801003457 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 309801003458 ligand binding site; other site 309801003459 oligomer interface; other site 309801003460 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 309801003461 dimer interface [polypeptide binding]; other site 309801003462 N-terminal domain interface [polypeptide binding]; other site 309801003463 sulfate 1 binding site; other site 309801003464 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 309801003465 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 309801003466 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 309801003467 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 309801003468 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 309801003469 putative dimer interface [polypeptide binding]; other site 309801003470 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 309801003471 active site 309801003472 putative substrate binding region [chemical binding]; other site 309801003473 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 309801003474 aspartate carbamoyltransferase; Region: PLN02527 309801003475 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 309801003476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003477 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 309801003478 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 309801003479 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801003480 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 309801003481 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 309801003482 DNA binding residues [nucleotide binding] 309801003483 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801003484 Walker A/P-loop; other site 309801003485 ATP binding site [chemical binding]; other site 309801003486 Q-loop/lid; other site 309801003487 exonuclease SbcC; Region: sbcc; TIGR00618 309801003488 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 309801003489 ABC transporter signature motif; other site 309801003490 Walker B; other site 309801003491 D-loop; other site 309801003492 H-loop/switch region; other site 309801003493 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 309801003494 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 309801003495 dimer interface [polypeptide binding]; other site 309801003496 active site residues [active] 309801003497 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 309801003498 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 309801003499 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 309801003500 tandem repeat interface [polypeptide binding]; other site 309801003501 oligomer interface [polypeptide binding]; other site 309801003502 active site residues [active] 309801003503 Domain of unknown function (DUF299); Region: DUF299; cl00780 309801003504 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 309801003505 TIGR03663 family protein; Region: TIGR03663 309801003506 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309801003507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801003508 active site 309801003509 phosphorylation site [posttranslational modification] 309801003510 intermolecular recognition site; other site 309801003511 dimerization interface [polypeptide binding]; other site 309801003512 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 309801003513 DNA binding site [nucleotide binding] 309801003514 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 309801003515 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 309801003516 dimer interface [polypeptide binding]; other site 309801003517 phosphorylation site [posttranslational modification] 309801003518 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 309801003519 ATP binding site [chemical binding]; other site 309801003520 Mg2+ binding site [ion binding]; other site 309801003521 G-X-G motif; other site 309801003522 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 309801003523 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 309801003524 TPP-binding site; other site 309801003525 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 309801003526 PYR/PP interface [polypeptide binding]; other site 309801003527 dimer interface [polypeptide binding]; other site 309801003528 TPP binding site [chemical binding]; other site 309801003529 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309801003530 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 309801003531 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 309801003532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003533 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 309801003534 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801003535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801003536 dimer interface [polypeptide binding]; other site 309801003537 conserved gate region; other site 309801003538 putative PBP binding loops; other site 309801003539 ABC-ATPase subunit interface; other site 309801003540 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 309801003541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801003542 dimer interface [polypeptide binding]; other site 309801003543 conserved gate region; other site 309801003544 putative PBP binding loops; other site 309801003545 ABC-ATPase subunit interface; other site 309801003546 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 309801003547 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801003548 Amidinotransferase; Region: Amidinotransf; cl12043 309801003549 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 309801003550 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 309801003551 S-adenosylmethionine binding site [chemical binding]; other site 309801003552 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 309801003553 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 309801003554 motif II; other site 309801003555 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801003556 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 309801003557 Ligand binding site; other site 309801003558 Putative Catalytic site; other site 309801003559 DXD motif; other site 309801003560 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 309801003561 S-adenosylmethionine binding site [chemical binding]; other site 309801003562 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; cl12011 309801003563 competence damage-inducible protein A; Provisional; Region: PRK00549 309801003564 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 309801003565 putative MPT binding site; other site 309801003566 Competence-damaged protein; Region: CinA; cl00666 309801003567 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 309801003568 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 309801003569 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 309801003570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 309801003571 Zn2+ binding site [ion binding]; other site 309801003572 Mg2+ binding site [ion binding]; other site 309801003573 GatB domain; Region: GatB_Yqey; cl11497 309801003574 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 309801003575 S-adenosylmethionine binding site [chemical binding]; other site 309801003576 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; cl12011 309801003577 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 309801003578 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 309801003579 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 309801003580 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 309801003581 ring oligomerisation interface [polypeptide binding]; other site 309801003582 ATP/Mg binding site [chemical binding]; other site 309801003583 stacking interactions; other site 309801003584 hinge regions; other site 309801003585 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 309801003586 oligomerisation interface [polypeptide binding]; other site 309801003587 mobile loop; other site 309801003588 roof hairpin; other site 309801003589 aspartate aminotransferase; Provisional; Region: PRK05764 309801003590 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 309801003591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801003592 homodimer interface [polypeptide binding]; other site 309801003593 catalytic residue [active] 309801003594 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 309801003595 thiamine-monophosphate kinase; Region: thiL; TIGR01379 309801003596 dimerization interface [polypeptide binding]; other site 309801003597 putative ATP binding site [chemical binding]; other site 309801003598 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 309801003599 S-adenosylmethionine binding site [chemical binding]; other site 309801003600 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 309801003601 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 309801003602 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 309801003603 CoenzymeA binding site [chemical binding]; other site 309801003604 subunit interaction site [polypeptide binding]; other site 309801003605 PHB binding site; other site 309801003606 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK08762 309801003607 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 309801003608 active site residue [active] 309801003609 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 309801003610 ATP binding site [chemical binding]; other site 309801003611 substrate interface [chemical binding]; other site 309801003612 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 309801003613 MPN+ (JAMM) motif; other site 309801003614 Zinc-binding site [ion binding]; other site 309801003615 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 309801003616 MoaE interaction surface [polypeptide binding]; other site 309801003617 MoeB interaction surface [polypeptide binding]; other site 309801003618 thiocarboxylated glycine; other site 309801003619 cysteine synthase B; Region: cysM; TIGR01138 309801003620 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 309801003621 dimer interface [polypeptide binding]; other site 309801003622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801003623 catalytic residue [active] 309801003624 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 309801003625 Catalytic domain of Protein Kinases; Region: PKc; cd00180 309801003626 active site 309801003627 ATP binding site [chemical binding]; other site 309801003628 substrate binding site [chemical binding]; other site 309801003629 activation loop (A-loop); other site 309801003630 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 309801003631 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 309801003632 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 309801003633 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 309801003634 Binuclear center (active site) [active] 309801003635 K-pathway; other site 309801003636 Putative proton exit pathway; other site 309801003637 Putative water exit pathway; other site 309801003638 Amino acid permease; Region: AA_permease; cl00524 309801003639 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 309801003640 Amino acid permease; Region: AA_permease; cl00524 309801003641 Putative cyclase; Region: Cyclase; cl00814 309801003642 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801003643 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801003644 active site 309801003645 metal binding site [ion binding]; metal-binding site 309801003646 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801003647 MOSC domain; Region: MOSC; pfam03473 309801003648 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 309801003649 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 309801003650 N- and C-terminal domain interface [polypeptide binding]; other site 309801003651 putative active site [active] 309801003652 catalytic site [active] 309801003653 metal binding site [ion binding]; metal-binding site 309801003654 carbohydrate binding site [chemical binding]; other site 309801003655 ATP binding site [chemical binding]; other site 309801003656 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 309801003657 catalytic center binding site [active] 309801003658 ATP binding site [chemical binding]; other site 309801003659 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 309801003660 dihydropteroate synthase; Region: DHPS; TIGR01496 309801003661 substrate binding pocket [chemical binding]; other site 309801003662 dimer interface [polypeptide binding]; other site 309801003663 inhibitor binding site; inhibition site 309801003664 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 309801003665 homooctamer interface [polypeptide binding]; other site 309801003666 active site 309801003667 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 309801003668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 309801003669 Predicted kinase [General function prediction only]; Region: COG0645 309801003670 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 309801003671 ATP-binding site [chemical binding]; other site 309801003672 Gluconate-6-phosphate binding site [chemical binding]; other site 309801003673 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 309801003674 Int/Topo IB signature motif; other site 309801003675 active site 309801003676 DNA binding site [nucleotide binding] 309801003677 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 309801003678 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 309801003679 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 309801003680 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 309801003681 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 309801003682 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801003683 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 309801003684 Cytochrome c; Region: Cytochrom_C; cl11414 309801003685 Cytochrome c; Region: Cytochrom_C; cl11414 309801003686 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 309801003687 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 309801003688 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801003689 catalytic residue [active] 309801003690 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309801003691 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 309801003692 active site 309801003693 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 309801003694 ADP-ribose binding site [chemical binding]; other site 309801003695 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 309801003696 tartrate dehydrogenase; Provisional; Region: PRK08194 309801003697 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 309801003698 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; cl09108 309801003699 metal binding site [ion binding]; metal-binding site 309801003700 substrate binding pocket [chemical binding]; other site 309801003701 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 309801003702 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 309801003703 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801003704 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 309801003705 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801003706 putative substrate translocation pore; other site 309801003707 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl03513 309801003708 Cupin domain; Region: Cupin_2; cl09118 309801003709 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 309801003710 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 309801003711 THF binding site; other site 309801003712 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 309801003713 substrate binding site [chemical binding]; other site 309801003714 THF binding site; other site 309801003715 zinc-binding site [ion binding]; other site 309801003716 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 309801003717 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 309801003718 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 309801003719 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801003720 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 309801003721 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801003722 DoxX; Region: DoxX; cl00976 309801003723 YceI-like domain; Region: YceI; cl01001 309801003724 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 309801003725 dimerization interface [polypeptide binding]; other site 309801003726 putative DNA binding site [nucleotide binding]; other site 309801003727 putative Zn2+ binding site [ion binding]; other site 309801003728 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 309801003729 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 309801003730 cobalamin binding residues [chemical binding]; other site 309801003731 putative BtuC binding residues; other site 309801003732 dimer interface [polypeptide binding]; other site 309801003733 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 309801003734 CoA-transferase family III; Region: CoA_transf_3; pfam02515 309801003735 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309801003736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801003737 active site 309801003738 phosphorylation site [posttranslational modification] 309801003739 intermolecular recognition site; other site 309801003740 dimerization interface [polypeptide binding]; other site 309801003741 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309801003742 DNA binding residues [nucleotide binding] 309801003743 dimerization interface [polypeptide binding]; other site 309801003744 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 309801003745 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801003746 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 309801003747 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 309801003748 DNA photolyase; Region: DNA_photolyase; pfam00875 309801003749 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 309801003750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003751 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 309801003752 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 309801003753 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 309801003754 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 309801003755 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 309801003756 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 309801003757 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801003758 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 309801003759 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 309801003760 dimerization interface [polypeptide binding]; other site 309801003761 active site 309801003762 metal binding site [ion binding]; metal-binding site 309801003763 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 309801003764 dsRNA binding site [nucleotide binding]; other site 309801003765 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 309801003766 CrcB-like protein; Region: CRCB; cl09114 309801003767 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 309801003768 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 309801003769 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; cl09108 309801003770 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 309801003771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003772 Ferrochelatase; Region: Ferrochelatase; pfam00762 309801003773 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 309801003774 C-terminal domain interface [polypeptide binding]; other site 309801003775 active site 309801003776 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 309801003777 active site 309801003778 N-terminal domain interface [polypeptide binding]; other site 309801003779 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 309801003780 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 309801003781 substrate binding site [chemical binding]; other site 309801003782 active site 309801003783 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 309801003784 heme-binding site [chemical binding]; other site 309801003785 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309801003786 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 309801003787 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 309801003788 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 309801003789 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 309801003790 active site 1 [active] 309801003791 dimer interface [polypeptide binding]; other site 309801003792 hexamer interface [polypeptide binding]; other site 309801003793 active site 2 [active] 309801003794 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 309801003795 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 309801003796 Flavin Reductases; Region: FlaRed; cl00801 309801003797 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 309801003798 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 309801003799 active site 309801003800 catalytic residues [active] 309801003801 metal binding site [ion binding]; metal-binding site 309801003802 DmpG-like communication domain; Region: DmpG_comm; pfam07836 309801003803 acetaldehyde dehydrogenase; Validated; Region: PRK08300 309801003804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003805 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 309801003806 Transcriptional regulator [Transcription]; Region: IclR; COG1414 309801003807 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801003808 Bacterial transcriptional regulator; Region: IclR; pfam01614 309801003809 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 309801003810 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 309801003811 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 309801003812 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 309801003813 active site 309801003814 metal binding site [ion binding]; metal-binding site 309801003815 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 309801003816 active site 309801003817 metal binding site [ion binding]; metal-binding site 309801003818 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 309801003819 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801003820 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 309801003821 TM-ABC transporter signature motif; other site 309801003822 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 309801003823 TM-ABC transporter signature motif; other site 309801003824 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 309801003825 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 309801003826 Walker A/P-loop; other site 309801003827 ATP binding site [chemical binding]; other site 309801003828 Q-loop/lid; other site 309801003829 ABC transporter signature motif; other site 309801003830 Walker B; other site 309801003831 D-loop; other site 309801003832 H-loop/switch region; other site 309801003833 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 309801003834 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 309801003835 Walker A/P-loop; other site 309801003836 ATP binding site [chemical binding]; other site 309801003837 Q-loop/lid; other site 309801003838 ABC transporter signature motif; other site 309801003839 Walker B; other site 309801003840 D-loop; other site 309801003841 H-loop/switch region; other site 309801003842 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 309801003843 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 309801003844 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 309801003845 putative ligand binding site [chemical binding]; other site 309801003846 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 309801003847 TM-ABC transporter signature motif; other site 309801003848 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 309801003849 TM-ABC transporter signature motif; other site 309801003850 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 309801003851 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 309801003852 Walker A/P-loop; other site 309801003853 ATP binding site [chemical binding]; other site 309801003854 Q-loop/lid; other site 309801003855 ABC transporter signature motif; other site 309801003856 Walker B; other site 309801003857 D-loop; other site 309801003858 H-loop/switch region; other site 309801003859 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 309801003860 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 309801003861 Walker A/P-loop; other site 309801003862 ATP binding site [chemical binding]; other site 309801003863 Q-loop/lid; other site 309801003864 ABC transporter signature motif; other site 309801003865 Walker B; other site 309801003866 D-loop; other site 309801003867 H-loop/switch region; other site 309801003868 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 309801003869 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801003870 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 309801003871 dimer interface [polypeptide binding]; other site 309801003872 putative radical transfer pathway; other site 309801003873 diiron center [ion binding]; other site 309801003874 tyrosyl radical; other site 309801003875 ribonucleoside-diphosphate reductase, alpha subunit; Region: NrdE_NrdA; TIGR02506 309801003876 Class I ribonucleotide reductase; Region: RNR_I; cd01679 309801003877 active site 309801003878 dimer interface [polypeptide binding]; other site 309801003879 catalytic residues [active] 309801003880 effector binding site; other site 309801003881 R2 peptide binding site; other site 309801003882 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 309801003883 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 309801003884 active site 309801003885 TDP-binding site; other site 309801003886 acceptor substrate-binding pocket; other site 309801003887 homodimer interface [polypeptide binding]; other site 309801003888 NurA domain; Region: NurA; cl09134 309801003889 AAA-like domain; Region: AAA_10; pfam12846 309801003890 Domain of unknown function DUF87; Region: DUF87; pfam01935 309801003891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801003892 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 309801003893 metal-binding site [ion binding] 309801003894 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 309801003895 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 309801003896 metal-binding site [ion binding] 309801003897 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309801003898 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 309801003899 active site 309801003900 motif I; other site 309801003901 motif II; other site 309801003902 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 309801003903 putative homotetramer interface [polypeptide binding]; other site 309801003904 putative homodimer interface [polypeptide binding]; other site 309801003905 putative allosteric switch controlling residues; other site 309801003906 putative metal binding site [ion binding]; other site 309801003907 putative homodimer-homodimer interface [polypeptide binding]; other site 309801003908 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 309801003909 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 309801003910 putative active site [active] 309801003911 putative metal binding site [ion binding]; other site 309801003912 potential frameshift: common BLAST hit: gi|75909875|ref|YP_324171.1| NHL repeat-containing protein 309801003913 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801003914 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 309801003915 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801003916 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 309801003917 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 309801003918 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 309801003919 inhibitor-cofactor binding pocket; inhibition site 309801003920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801003921 catalytic residue [active] 309801003922 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 309801003923 4Fe-4S binding domain; Region: Fer4; cl02805 309801003924 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 309801003925 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 309801003926 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 309801003927 ornithine carbamoyltransferase; Provisional; Region: PRK00779 309801003928 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 309801003929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003930 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 309801003931 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801003932 putative substrate translocation pore; other site 309801003933 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 309801003934 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 309801003935 putative dimer interface [polypeptide binding]; other site 309801003936 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 309801003937 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 309801003938 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 309801003939 HemN C-terminal region; Region: HemN_C; pfam06969 309801003940 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 309801003941 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 309801003942 P-loop; other site 309801003943 Magnesium ion binding site [ion binding]; other site 309801003944 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 309801003945 Magnesium ion binding site [ion binding]; other site 309801003946 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 309801003947 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; cl09108 309801003948 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 key...; Region: CBS_pair_IMPDH; cd04601 309801003949 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 the guanine...; Region: IMPDH; cd00381 309801003950 active site 309801003951 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 309801003952 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801003953 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 309801003954 catalytic residues [active] 309801003955 Putative cyclase; Region: Cyclase; cl00814 309801003956 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801003957 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 309801003958 putative substrate translocation pore; other site 309801003959 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 309801003960 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309801003961 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309801003962 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 309801003963 potassium and/or sodium efflux P-type ATPase, fungal-type; Region: ATPase-IID_K-Na; TIGR01523 309801003964 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801003965 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 309801003966 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 309801003967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003968 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 309801003969 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 309801003970 HSP70 interaction site [polypeptide binding]; other site 309801003971 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 309801003972 substrate binding site [polypeptide binding]; other site 309801003973 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 309801003974 Zn binding sites [ion binding]; other site 309801003975 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 309801003976 dimer interface [polypeptide binding]; other site 309801003977 Sensor protein DegS; Region: DegS; pfam05384 309801003978 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 309801003979 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 309801003980 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 309801003981 inhibitor-cofactor binding pocket; inhibition site 309801003982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801003983 catalytic residue [active] 309801003984 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 309801003985 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 309801003986 metal binding site [ion binding]; metal-binding site 309801003987 dimer interface [polypeptide binding]; other site 309801003988 Uncharacterized conserved protein [Function unknown]; Region: COG1432 309801003989 LabA_like proteins; Region: LabA; cd10911 309801003990 putative metal binding site [ion binding]; other site 309801003991 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 309801003992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801003993 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 309801003994 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 309801003995 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801003996 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 309801003997 motif II; other site 309801003998 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 309801003999 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 309801004000 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 309801004001 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 309801004002 NAD(P) binding site [chemical binding]; other site 309801004003 catalytic residues [active] 309801004004 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 309801004005 Aspartase; Region: Aspartase; cd01357 309801004006 active sites [active] 309801004007 tetramer interface [polypeptide binding]; other site 309801004008 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 309801004009 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 309801004010 4Fe-4S binding domain; Region: Fer4; cl02805 309801004011 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 309801004012 catalytic loop [active] 309801004013 iron binding site [ion binding]; other site 309801004014 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 309801004015 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 309801004016 4Fe-4S binding domain; Region: Fer4; cl02805 309801004017 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801004018 molybdopterin cofactor binding site; other site 309801004019 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 309801004020 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 309801004021 GatB domain; Region: GatB_Yqey; cl11497 309801004022 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 309801004023 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 309801004024 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 309801004025 NAD(P) binding site [chemical binding]; other site 309801004026 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309801004027 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 309801004028 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309801004029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004030 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; cl15357 309801004031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004032 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 309801004033 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 309801004034 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 309801004035 active site 309801004036 metal binding site [ion binding]; metal-binding site 309801004037 homotetramer interface [polypeptide binding]; other site 309801004038 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 309801004039 dimerization interface [polypeptide binding]; other site 309801004040 putative DNA binding site [nucleotide binding]; other site 309801004041 putative Zn2+ binding site [ion binding]; other site 309801004042 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 309801004043 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 309801004044 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 309801004045 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801004046 putative substrate translocation pore; other site 309801004047 Cupin domain; Region: Cupin_2; cl09118 309801004048 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 309801004049 putative substrate translocation pore; other site 309801004050 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 309801004051 E3 interaction surface; other site 309801004052 lipoyl attachment site [posttranslational modification]; other site 309801004053 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 309801004054 e3 binding domain; Region: E3_binding; pfam02817 309801004055 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801004056 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801004057 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 309801004058 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 309801004059 tetramer interface [polypeptide binding]; other site 309801004060 TPP-binding site [chemical binding]; other site 309801004061 heterodimer interface [polypeptide binding]; other site 309801004062 phosphorylation loop region [posttranslational modification] 309801004063 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 309801004064 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 309801004065 alpha subunit interface [polypeptide binding]; other site 309801004066 TPP binding site [chemical binding]; other site 309801004067 heterodimer interface [polypeptide binding]; other site 309801004068 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309801004069 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 309801004070 MgtC family; Region: MgtC; cl12207 309801004071 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 309801004072 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801004073 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309801004074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801004075 Walker A/P-loop; other site 309801004076 ATP binding site [chemical binding]; other site 309801004077 Q-loop/lid; other site 309801004078 ABC transporter signature motif; other site 309801004079 Walker B; other site 309801004080 D-loop; other site 309801004081 H-loop/switch region; other site 309801004082 ABC-2 type transporter; Region: ABC2_membrane; cl11417 309801004083 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801004084 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 309801004085 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 309801004086 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 309801004087 Competence-damaged protein; Region: CinA; cl00666 309801004088 H+ Antiporter protein; Region: 2A0121; TIGR00900 309801004089 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 309801004090 active site 309801004091 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 309801004092 active site 309801004093 DNA binding site [nucleotide binding] 309801004094 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 309801004095 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 309801004096 active site 309801004097 HIGH motif; other site 309801004098 nucleotide binding site [chemical binding]; other site 309801004099 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 309801004100 active site 309801004101 KMSKS motif; other site 309801004102 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 309801004103 tRNA binding surface [nucleotide binding]; other site 309801004104 anticodon binding site; other site 309801004105 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 309801004106 acetylornithine aminotransferase; Provisional; Region: PRK02627 309801004107 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 309801004108 inhibitor-cofactor binding pocket; inhibition site 309801004109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801004110 catalytic residue [active] 309801004111 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 309801004112 nucleotide binding site [chemical binding]; other site 309801004113 substrate binding site [chemical binding]; other site 309801004114 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 309801004115 S-adenosylmethionine binding site [chemical binding]; other site 309801004116 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 309801004117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004118 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 309801004119 Lysine biosynthesis enzyme LysX; Region: LysX_arch; TIGR02144 309801004120 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801004121 M20 Peptidase acetylornithine deacetylase/acetyl-lysine deacetylase; Region: M20_ArgE_LysK; cd05653 309801004122 acetyl-lysine deacetylase; Validated; Region: PRK00466 309801004123 metal binding site [ion binding]; metal-binding site 309801004124 putative dimer interface [polypeptide binding]; other site 309801004125 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801004126 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 309801004127 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 309801004128 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801004129 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801004130 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801004131 dimer interface [polypeptide binding]; other site 309801004132 conserved gate region; other site 309801004133 putative PBP binding loops; other site 309801004134 ABC-ATPase subunit interface; other site 309801004135 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 309801004136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801004137 dimer interface [polypeptide binding]; other site 309801004138 conserved gate region; other site 309801004139 putative PBP binding loops; other site 309801004140 ABC-ATPase subunit interface; other site 309801004141 Predicted transcriptional regulator [Transcription]; Region: COG2345 309801004142 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801004143 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 309801004144 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 309801004145 metal-binding site [ion binding] 309801004146 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309801004147 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801004148 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 309801004149 dimerization interface [polypeptide binding]; other site 309801004150 putative DNA binding site [nucleotide binding]; other site 309801004151 putative Zn2+ binding site [ion binding]; other site 309801004152 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 309801004153 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 309801004154 active site 309801004155 HIGH motif; other site 309801004156 KMSKS motif; other site 309801004157 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 309801004158 tRNA binding surface [nucleotide binding]; other site 309801004159 anticodon binding site; other site 309801004160 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 309801004161 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 309801004162 TPR motif; other site 309801004163 binding surface 309801004164 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 catalyze...; Region: LT_GEWL; cd00254 309801004165 N-acetyl-D-glucosamine binding site [chemical binding]; other site 309801004166 catalytic residue [active] 309801004167 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 309801004168 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 309801004169 Cytochrome c; Region: Cytochrom_C; cl11414 309801004170 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 309801004171 Ligand binding site; other site 309801004172 Ligand binding site; other site 309801004173 Ligand binding site; other site 309801004174 Putative Catalytic site; other site 309801004175 DXD motif; other site 309801004176 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 309801004177 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 309801004178 putative substrate translocation pore; other site 309801004179 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 309801004180 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 309801004181 Predicted transcriptional regulator [Transcription]; Region: COG2378 309801004182 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801004183 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 309801004184 B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction; Region: BBOX; cl00034 309801004185 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 309801004186 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 309801004187 substrate binding site [chemical binding]; other site 309801004188 ATP binding site [chemical binding]; other site 309801004189 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 309801004190 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 309801004191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801004192 Walker A/P-loop; other site 309801004193 ATP binding site [chemical binding]; other site 309801004194 Q-loop/lid; other site 309801004195 ABC transporter signature motif; other site 309801004196 Walker B; other site 309801004197 D-loop; other site 309801004198 H-loop/switch region; other site 309801004199 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 309801004200 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801004201 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 309801004202 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 309801004203 excinuclease ABC subunit B; Provisional; Region: PRK05298 309801004204 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 309801004205 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 309801004206 ATP-binding site [chemical binding]; other site 309801004207 ATP binding site [chemical binding]; other site 309801004208 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 309801004209 nucleotide binding region [chemical binding]; other site 309801004210 ATP-binding site [chemical binding]; other site 309801004211 Ultra-violet resistance protein B; Region: UvrB; pfam12344 309801004212 UvrB/uvrC motif; Region: UVR; pfam02151 309801004213 Protein of unknown function (DUF981); Region: DUF981; cl01337 309801004214 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309801004215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801004216 active site 309801004217 phosphorylation site [posttranslational modification] 309801004218 intermolecular recognition site; other site 309801004219 dimerization interface [polypeptide binding]; other site 309801004220 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309801004221 dimerization interface [polypeptide binding]; other site 309801004222 DNA binding residues [nucleotide binding] 309801004223 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309801004224 GAF domain; Region: GAF; cl00853 309801004225 Histidine kinase; Region: HisKA_3; pfam07730 309801004226 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 309801004227 ATP binding site [chemical binding]; other site 309801004228 Mg2+ binding site [ion binding]; other site 309801004229 G-X-G motif; other site 309801004230 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 309801004231 potential protein location (hypothetical protein trd_1554 [Thermomicrobium roseum DSM 5159]) that overlaps RNA (tRNA-L) 309801004232 glutamine synthetase, type I; Region: GlnA; TIGR00653 309801004233 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 309801004234 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 309801004235 glutamine synthetase, type I; Region: GlnA; TIGR00653 309801004236 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 309801004237 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 309801004238 PAS fold; Region: PAS; pfam00989 309801004239 PAS fold; Region: PAS_3; pfam08447 309801004240 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 309801004241 putative active site [active] 309801004242 heme pocket [chemical binding]; other site 309801004243 GAF domain; Region: GAF; cl00853 309801004244 PAS domain S-box; Region: sensory_box; TIGR00229 309801004245 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 309801004246 putative active site [active] 309801004247 heme pocket [chemical binding]; other site 309801004248 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 309801004249 metal binding site [ion binding]; metal-binding site 309801004250 active site 309801004251 I-site; other site 309801004252 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 309801004253 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 309801004254 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 309801004255 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 309801004256 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 309801004257 Walker A motif; other site 309801004258 ATP binding site [chemical binding]; other site 309801004259 Walker B motif; other site 309801004260 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 309801004261 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 309801004262 PA/protease or protease-like domain interface [polypeptide binding]; other site 309801004263 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 309801004264 metal binding site [ion binding]; metal-binding site 309801004265 rod shape-determining protein MreB; Provisional; Region: PRK13930 309801004266 Cell division protein FtsA; Region: FtsA; cl11496 309801004267 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 309801004268 nudix motif; other site 309801004269 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 309801004270 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 309801004271 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801004272 catalytic residue [active] 309801004273 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 309801004274 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 309801004275 ATP binding site [chemical binding]; other site 309801004276 substrate interface [chemical binding]; other site 309801004277 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 309801004278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004279 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 309801004280 Bacterial SH3 domain; Region: SH3_3; cl02551 309801004281 Uncharacterized Candidatus kuenenia aldehyde dehydrogenase AldH (CAJ73105)-like; Region: ALDH_AldH-CAJ73105; cd07131 309801004282 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 309801004283 NAD binding site [chemical binding]; other site 309801004284 catalytic residues [active] 309801004285 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801004286 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 309801004287 RmuC family; Region: RmuC; pfam02646 309801004288 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 309801004289 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 309801004290 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 309801004291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801004292 catalytic residue [active] 309801004293 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 309801004294 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 309801004295 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 309801004296 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 309801004297 active site 309801004298 catalytic residues [active] 309801004299 Uncharacterized conserved protein [Function unknown]; Region: COG1565 309801004300 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 309801004301 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 309801004302 Probable Catalytic site; other site 309801004303 metal-binding site 309801004304 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 309801004305 putative metal binding site; other site 309801004306 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 309801004307 Probable Catalytic site; other site 309801004308 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801004309 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 309801004310 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 309801004311 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 309801004312 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 309801004313 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 309801004314 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 309801004315 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 309801004316 dimer interface [polypeptide binding]; other site 309801004317 phosphorylation site [posttranslational modification] 309801004318 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 309801004319 ATP binding site [chemical binding]; other site 309801004320 Mg2+ binding site [ion binding]; other site 309801004321 G-X-G motif; other site 309801004322 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309801004323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801004324 active site 309801004325 phosphorylation site [posttranslational modification] 309801004326 intermolecular recognition site; other site 309801004327 dimerization interface [polypeptide binding]; other site 309801004328 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 309801004329 DNA binding site [nucleotide binding] 309801004330 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 309801004331 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 309801004332 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 309801004333 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 309801004334 Substrate binding site; other site 309801004335 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 309801004336 DNA topoisomerase I; Validated; Region: PRK05582 309801004337 active site 309801004338 interdomain interaction site; other site 309801004339 putative metal-binding site [ion binding]; other site 309801004340 nucleotide binding site [chemical binding]; other site 309801004341 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 309801004342 domain I; other site 309801004343 DNA binding groove [nucleotide binding] 309801004344 phosphate binding site [ion binding]; other site 309801004345 domain II; other site 309801004346 domain III; other site 309801004347 nucleotide binding site [chemical binding]; other site 309801004348 catalytic site [active] 309801004349 domain IV; other site 309801004350 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 309801004351 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 309801004352 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 309801004353 active site 309801004354 HslU subunit interaction site [polypeptide binding]; other site 309801004355 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 309801004356 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 309801004357 Walker A motif; other site 309801004358 ATP binding site [chemical binding]; other site 309801004359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801004360 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 309801004361 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 309801004362 Ligand binding site; other site 309801004363 Putative Catalytic site; other site 309801004364 DXD motif; other site 309801004365 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 309801004366 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 309801004367 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 309801004368 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801004369 peptide binding site [polypeptide binding]; other site 309801004370 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 309801004371 homodimer interface [polypeptide binding]; other site 309801004372 substrate-cofactor binding pocket; other site 309801004373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801004374 Aminotransferase class IV; Region: Aminotran_4; pfam01063 309801004375 catalytic residue [active] 309801004376 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 309801004377 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 309801004378 inhibitor-cofactor binding pocket; inhibition site 309801004379 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801004380 catalytic residue [active] 309801004381 D-cysteine desulfhydrase; Validated; Region: PRK03910 309801004382 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 309801004383 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801004384 catalytic residue [active] 309801004385 primosome assembly protein PriA; Validated; Region: PRK05580 309801004386 primosome assembly protein PriA; Validated; Region: PRK05580 309801004387 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 309801004388 ATP binding site [chemical binding]; other site 309801004389 putative Mg++ binding site [ion binding]; other site 309801004390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801004391 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 309801004392 active site 309801004393 catalytic residues [active] 309801004394 metal binding site [ion binding]; metal-binding site 309801004395 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801004396 GTP/Mg2+ binding site [chemical binding]; other site 309801004397 G5 box; other site 309801004398 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 309801004399 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 309801004400 catalytic site [active] 309801004401 G1 box; other site 309801004402 G-X2-G-X-G-K; other site 309801004403 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 309801004404 Domain of unknown function (DUF814); Region: DUF814; pfam05670 309801004405 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 309801004406 Phosphopantetheine attachment site; Region: PP-binding; cl09936 309801004407 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 309801004408 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 309801004409 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 309801004410 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801004411 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 309801004412 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 309801004413 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 309801004414 NAD(P) binding site [chemical binding]; other site 309801004415 homotetramer interface [polypeptide binding]; other site 309801004416 homodimer interface [polypeptide binding]; other site 309801004417 active site 309801004418 Acyl transferase domain; Region: Acyl_transf_1; cl08282 309801004419 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 309801004420 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 309801004421 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 309801004422 dimer interface [polypeptide binding]; other site 309801004423 active site 309801004424 CoA binding pocket [chemical binding]; other site 309801004425 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 309801004426 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 309801004427 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; cl09155 309801004428 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 309801004429 homodimer interface [polypeptide binding]; other site 309801004430 substrate-cofactor binding pocket; other site 309801004431 Aminotransferase class IV; Region: Aminotran_4; pfam01063 309801004432 catalytic residue [active] 309801004433 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_19; cd08518 309801004434 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801004435 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 309801004436 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 309801004437 Walker A/P-loop; other site 309801004438 ATP binding site [chemical binding]; other site 309801004439 Q-loop/lid; other site 309801004440 ABC transporter signature motif; other site 309801004441 Walker B; other site 309801004442 D-loop; other site 309801004443 H-loop/switch region; other site 309801004444 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 309801004445 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 309801004446 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 309801004447 Walker A/P-loop; other site 309801004448 ATP binding site [chemical binding]; other site 309801004449 Q-loop/lid; other site 309801004450 ABC transporter signature motif; other site 309801004451 Walker B; other site 309801004452 D-loop; other site 309801004453 H-loop/switch region; other site 309801004454 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 309801004455 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 309801004456 active site 309801004457 putative substrate binding region [chemical binding]; other site 309801004458 ScpA/B protein; Region: ScpA_ScpB; cl00598 309801004459 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 309801004460 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 309801004461 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 309801004462 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801004463 catalytic residue [active] 309801004464 Predicted transcriptional regulator [Transcription]; Region: COG1959 309801004465 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801004466 peptide chain release factor 2; Validated; Region: prfB; PRK00578 309801004467 RF-1 domain; Region: RF-1; cl02875 309801004468 RF-1 domain; Region: RF-1; cl02875 309801004469 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 309801004470 Zn binding site [ion binding]; other site 309801004471 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801004472 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 309801004473 HrcA protein C terminal domain; Region: HrcA; pfam01628 309801004474 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 309801004475 dimer interface [polypeptide binding]; other site 309801004476 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 309801004477 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 309801004478 Phage capsid family; Region: Phage_capsid; pfam05065 309801004479 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 309801004480 amidase catalytic site [active] 309801004481 Zn binding residues [ion binding]; other site 309801004482 substrate binding site [chemical binding]; other site 309801004483 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 309801004484 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 309801004485 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 309801004486 GAF domain; Region: GAF; cl00853 309801004487 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 309801004488 active site 309801004489 catalytic site [active] 309801004490 metal binding site [ion binding]; metal-binding site 309801004491 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 309801004492 active site 309801004493 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 309801004494 LytB protein; Region: LYTB; cl00507 309801004495 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 309801004496 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 309801004497 motif II; other site 309801004498 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 309801004499 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 309801004500 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 309801004501 NADP binding site [chemical binding]; other site 309801004502 active site 309801004503 putative substrate binding site [chemical binding]; other site 309801004504 endonuclease IV; Provisional; Region: PRK01060 309801004505 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 309801004506 AP (apurinic/apyrimidinic) site pocket; other site 309801004507 DNA interaction; other site 309801004508 Metal-binding active site; metal-binding site 309801004509 Histidine kinase; Region: HisKA_3; pfam07730 309801004510 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 309801004511 ATP binding site [chemical binding]; other site 309801004512 Mg2+ binding site [ion binding]; other site 309801004513 G-X-G motif; other site 309801004514 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309801004515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801004516 active site 309801004517 phosphorylation site [posttranslational modification] 309801004518 intermolecular recognition site; other site 309801004519 dimerization interface [polypeptide binding]; other site 309801004520 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309801004521 DNA binding residues [nucleotide binding] 309801004522 dimerization interface [polypeptide binding]; other site 309801004523 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 309801004524 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 309801004525 ATP binding site [chemical binding]; other site 309801004526 Mg2+ binding site [ion binding]; other site 309801004527 G-X-G motif; other site 309801004528 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 309801004529 ATP binding site [chemical binding]; other site 309801004530 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 309801004531 RDD family; Region: RDD; cl00746 309801004532 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 309801004533 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801004534 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801004535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 309801004536 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 309801004537 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 309801004538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801004539 putative PBP binding loops; other site 309801004540 dimer interface [polypeptide binding]; other site 309801004541 ABC-ATPase subunit interface; other site 309801004542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 309801004543 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 309801004544 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 309801004545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801004546 dimer interface [polypeptide binding]; other site 309801004547 conserved gate region; other site 309801004548 putative PBP binding loops; other site 309801004549 ABC-ATPase subunit interface; other site 309801004550 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 309801004551 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 309801004552 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 309801004553 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 309801004554 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 309801004555 hypothetical protein; Provisional; Region: PRK08296 309801004556 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 309801004557 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 309801004558 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 309801004559 carboxyltransferase (CT) interaction site; other site 309801004560 biotinylation site [posttranslational modification]; other site 309801004561 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 309801004562 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 309801004563 active site 309801004564 catalytic residues [active] 309801004565 metal binding site [ion binding]; metal-binding site 309801004566 homodimer binding site [polypeptide binding]; other site 309801004567 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 309801004568 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 309801004569 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 309801004570 active site 309801004571 motif I; other site 309801004572 motif II; other site 309801004573 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801004574 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801004575 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801004576 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 309801004577 Uncharacterized class III extradiol dioxygenases; Region: ED_3B_like; cd07952 309801004578 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 309801004579 putative active site [active] 309801004580 putative metal binding site [ion binding]; other site 309801004581 2-isopropylmalate synthase; Validated; Region: PRK00915 309801004582 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 309801004583 active site 309801004584 catalytic residues [active] 309801004585 metal binding site [ion binding]; metal-binding site 309801004586 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 309801004587 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 309801004588 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 309801004589 substrate binding site [chemical binding]; other site 309801004590 ligand binding site [chemical binding]; other site 309801004591 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 309801004592 substrate binding site [chemical binding]; other site 309801004593 tartrate dehydrogenase; Provisional; Region: PRK08194 309801004594 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 309801004595 Glyco_18 domain; Region: Glyco_18; smart00636 309801004596 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 309801004597 active site 309801004598 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 309801004599 active site 309801004600 trimer interface [polypeptide binding]; other site 309801004601 dimer interface [polypeptide binding]; other site 309801004602 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 309801004603 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 309801004604 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 309801004605 active site 309801004606 elongation factor P; Validated; Region: PRK00529 309801004607 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 309801004608 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 309801004609 RNA binding site [nucleotide binding]; other site 309801004610 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 309801004611 RNA binding site [nucleotide binding]; other site 309801004612 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 309801004613 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 309801004614 carboxyltransferase (CT) interaction site; other site 309801004615 biotinylation site [posttranslational modification]; other site 309801004616 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 309801004617 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 309801004618 generic binding surface II; other site 309801004619 generic binding surface I; other site 309801004620 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 309801004621 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 309801004622 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 309801004623 active site 309801004624 catalytic residues [active] 309801004625 Domain of unknown function DUF11; Region: DUF11; cl15273 309801004626 Domain of unknown function DUF11; Region: DUF11; cl15273 309801004627 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 309801004628 heme-binding site [chemical binding]; other site 309801004629 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801004630 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 309801004631 MoaE interaction surface [polypeptide binding]; other site 309801004632 MoeB interaction surface [polypeptide binding]; other site 309801004633 thiocarboxylated glycine; other site 309801004634 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 309801004635 MoaE homodimer interface [polypeptide binding]; other site 309801004636 MoaD interaction [polypeptide binding]; other site 309801004637 active site residues [active] 309801004638 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 309801004639 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 309801004640 dimer interface [polypeptide binding]; other site 309801004641 putative functional site; other site 309801004642 putative MPT binding site; other site 309801004643 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 309801004644 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 309801004645 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 309801004646 synthetase active site [active] 309801004647 NTP binding site [chemical binding]; other site 309801004648 metal binding site [ion binding]; metal-binding site 309801004649 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 309801004650 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 309801004651 GTPase CgtA; Reviewed; Region: obgE; PRK12297 309801004652 GTP1/OBG; Region: GTP1_OBG; pfam01018 309801004653 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 309801004654 G1 box; other site 309801004655 GTP/Mg2+ binding site [chemical binding]; other site 309801004656 Switch I region; other site 309801004657 G2 box; other site 309801004658 G3 box; other site 309801004659 Switch II region; other site 309801004660 G4 box; other site 309801004661 G5 box; other site 309801004662 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 309801004663 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 309801004664 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 309801004665 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 309801004666 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801004667 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 309801004668 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 309801004669 DNA binding residues [nucleotide binding] 309801004670 diaminopimelate decarboxylase; Region: lysA; TIGR01048 309801004671 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 309801004672 active site 309801004673 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 309801004674 substrate binding site [chemical binding]; other site 309801004675 catalytic residues [active] 309801004676 dimer interface [polypeptide binding]; other site 309801004677 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 309801004678 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801004679 Walker A/P-loop; other site 309801004680 ATP binding site [chemical binding]; other site 309801004681 Q-loop/lid; other site 309801004682 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 309801004683 ABC transporter; Region: ABC_tran_2; pfam12848 309801004684 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 309801004685 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 309801004686 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 309801004687 CoA-binding site [chemical binding]; other site 309801004688 ATP-binding [chemical binding]; other site 309801004689 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 309801004690 active site 309801004691 dimer interface [polypeptide binding]; other site 309801004692 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 309801004693 active site 309801004694 putative substrate binding region [chemical binding]; other site 309801004695 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 309801004696 Double zinc ribbon; Region: DZR; pfam12773 309801004697 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 309801004698 putative active site [active] 309801004699 dimerization interface [polypeptide binding]; other site 309801004700 putative tRNAtyr binding site [nucleotide binding]; other site 309801004701 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 309801004702 homotrimer interaction site [polypeptide binding]; other site 309801004703 zinc binding site [ion binding]; other site 309801004704 CDP-binding sites; other site 309801004705 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 309801004706 substrate binding site; other site 309801004707 dimer interface; other site 309801004708 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 309801004709 putative active site [active] 309801004710 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 309801004711 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 309801004712 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 309801004713 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; cl09155 309801004714 pyruvate kinase; Provisional; Region: PRK05826 309801004715 domain interfaces; other site 309801004716 active site 309801004717 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 309801004718 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 309801004719 Adenosine specific kinase; Region: Adenosine_kin; cl00796 309801004720 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 309801004721 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 309801004722 tetramer interface [polypeptide binding]; other site 309801004723 TPP-binding site [chemical binding]; other site 309801004724 heterodimer interface [polypeptide binding]; other site 309801004725 phosphorylation loop region [posttranslational modification] 309801004726 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 309801004727 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 309801004728 alpha subunit interface [polypeptide binding]; other site 309801004729 TPP binding site [chemical binding]; other site 309801004730 heterodimer interface [polypeptide binding]; other site 309801004731 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309801004732 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 309801004733 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 309801004734 E3 interaction surface; other site 309801004735 lipoyl attachment site [posttranslational modification]; other site 309801004736 e3 binding domain; Region: E3_binding; pfam02817 309801004737 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 309801004738 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 309801004739 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 309801004740 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 309801004741 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 309801004742 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 309801004743 active site 309801004744 seryl-tRNA synthetase; Provisional; Region: PRK05431 309801004745 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 309801004746 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 bound...; Region: SerRS_core; cd00770 309801004747 dimer interface [polypeptide binding]; other site 309801004748 active site 309801004749 motif 1; other site 309801004750 motif 2; other site 309801004751 motif 3; other site 309801004752 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 309801004753 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 309801004754 Uncharacterized conserved protein [Function unknown]; Region: COG5476 309801004755 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 309801004756 MlrC C-terminus; Region: MlrC_C; pfam07171 309801004757 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309801004758 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 309801004759 Walker A/P-loop; other site 309801004760 ATP binding site [chemical binding]; other site 309801004761 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309801004762 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 309801004763 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 309801004764 ABC transporter signature motif; other site 309801004765 Walker B; other site 309801004766 D-loop; other site 309801004767 H-loop/switch region; other site 309801004768 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 309801004769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004770 NAD(P) binding site [chemical binding]; other site 309801004771 active site 309801004772 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 309801004773 dimer interface [polypeptide binding]; other site 309801004774 substrate binding site [chemical binding]; other site 309801004775 metal binding sites [ion binding]; metal-binding site 309801004776 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 309801004777 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 309801004778 active site residue [active] 309801004779 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 309801004780 active site residue [active] 309801004781 Protein of unknown function (DUF541); Region: SIMPL; cl01077 309801004782 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309801004783 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801004784 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; cl15358 309801004785 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309801004786 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309801004787 dimerization interface [polypeptide binding]; other site 309801004788 DNA binding residues [nucleotide binding] 309801004789 Septum formation initiator; Region: DivIC; cl11433 309801004790 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 309801004791 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 309801004792 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 309801004793 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 309801004794 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 309801004795 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 309801004796 Walker A motif; other site 309801004797 ATP binding site [chemical binding]; other site 309801004798 Walker B motif; other site 309801004799 arginine finger; other site 309801004800 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 309801004801 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 309801004802 Predicted methyltransferases [General function prediction only]; Region: COG0313 309801004803 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 309801004804 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 309801004805 CoA-transferase family III; Region: CoA_transf_3; pfam02515 309801004806 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 309801004807 enoyl-CoA hydratase; Provisional; Region: PRK06144 309801004808 substrate binding site [chemical binding]; other site 309801004809 oxyanion hole (OAH) forming residues; other site 309801004810 trimer interface [polypeptide binding]; other site 309801004811 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 309801004812 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 309801004813 Predicted membrane protein [Function unknown]; Region: COG2364 309801004814 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 309801004815 active site 309801004816 multimer interface [polypeptide binding]; other site 309801004817 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 309801004818 TPR motif; other site 309801004819 Protein of unknown function (DUF2419); Region: DUF2419; pfam10343 309801004820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004821 sarcosine oxidase, monomeric form; Region: soxA_mon; TIGR01377 309801004822 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 309801004823 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309801004824 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801004825 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 309801004826 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 309801004827 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 309801004828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004829 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 309801004830 putative L-serine binding site [chemical binding]; other site 309801004831 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 309801004832 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 309801004833 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 309801004834 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 309801004835 NADH dehydrogenase; Region: NADHdh; cl00469 309801004836 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 309801004837 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 309801004838 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 309801004839 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 309801004840 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 309801004841 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 309801004842 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 309801004843 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 309801004844 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 309801004845 Coenzyme A binding pocket [chemical binding]; other site 309801004846 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 309801004847 PUA domain; Region: PUA; cl00607 309801004848 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; cl12011 309801004849 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 309801004850 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 309801004851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801004852 homodimer interface [polypeptide binding]; other site 309801004853 catalytic residue [active] 309801004854 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 309801004855 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 attaches...; Region: class_II_aaRS-like_core; cl00268 309801004856 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 309801004857 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801004858 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 309801004859 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801004860 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 309801004861 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 309801004862 Ligand Binding Site [chemical binding]; other site 309801004863 GTP-binding protein YchF; Reviewed; Region: PRK09601 309801004864 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801004865 G1 box; other site 309801004866 GTP/Mg2+ binding site [chemical binding]; other site 309801004867 G2 box; other site 309801004868 Switch I region; other site 309801004869 G3 box; other site 309801004870 Switch II region; other site 309801004871 G4 box; other site 309801004872 G5 box; other site 309801004873 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 309801004874 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 309801004875 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 309801004876 intersubunit interface [polypeptide binding]; other site 309801004877 active site 309801004878 Zn2+ binding site [ion binding]; other site 309801004879 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 309801004880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004881 CoA-ligase; Region: Ligase_CoA; pfam00549 309801004882 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 309801004883 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801004884 CoA-ligase; Region: Ligase_CoA; pfam00549 309801004885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801004886 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 309801004887 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 309801004888 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 309801004889 tetramer interface [polypeptide binding]; other site 309801004890 TPP-binding site [chemical binding]; other site 309801004891 heterodimer interface [polypeptide binding]; other site 309801004892 phosphorylation loop region [posttranslational modification] 309801004893 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 309801004894 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 309801004895 alpha subunit interface [polypeptide binding]; other site 309801004896 TPP binding site [chemical binding]; other site 309801004897 heterodimer interface [polypeptide binding]; other site 309801004898 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 309801004899 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 309801004900 Ligand Binding Site [chemical binding]; other site 309801004901 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 309801004902 Ligand Binding Site [chemical binding]; other site 309801004903 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 309801004904 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801004905 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 309801004906 PAS fold; Region: PAS_4; pfam08448 309801004907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 309801004908 metal binding site [ion binding]; metal-binding site 309801004909 active site 309801004910 I-site; other site 309801004911 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 309801004912 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 309801004913 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 309801004914 active site 309801004915 dimer interface [polypeptide binding]; other site 309801004916 effector binding site; other site 309801004917 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 309801004918 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 309801004919 TSCPD domain; Region: TSCPD; cl14834 309801004920 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309801004921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801004922 active site 309801004923 phosphorylation site [posttranslational modification] 309801004924 intermolecular recognition site; other site 309801004925 dimerization interface [polypeptide binding]; other site 309801004926 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309801004927 dimerization interface [polypeptide binding]; other site 309801004928 DNA binding residues [nucleotide binding] 309801004929 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 309801004930 Histidine kinase; Region: HisKA_3; pfam07730 309801004931 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 309801004932 signal recognition particle protein; Provisional; Region: PRK10867 309801004933 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 309801004934 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 309801004935 P loop; other site 309801004936 GTP binding site [chemical binding]; other site 309801004937 Signal peptide binding domain; Region: SRP_SPB; pfam02978 309801004938 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 309801004939 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 309801004940 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 309801004941 GTP binding site [chemical binding]; other site 309801004942 hypothetical protein; Reviewed; Region: PRK00024 309801004943 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 309801004944 MPN+ (JAMM) motif; other site 309801004945 Zinc-binding site [ion binding]; other site 309801004946 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 309801004947 amidase catalytic site [active] 309801004948 Zn binding residues [ion binding]; other site 309801004949 substrate binding site [chemical binding]; other site 309801004950 Predicted membrane protein (DUF2085); Region: DUF2085; cl01570 309801004951 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 309801004952 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 309801004953 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 309801004954 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 309801004955 NAD(P) binding site [chemical binding]; other site 309801004956 catalytic residues [active] 309801004957 YCII-related domain; Region: YCII; cl00999 309801004958 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 309801004959 PhoU domain; Region: PhoU; pfam01895 309801004960 PhoU domain; Region: PhoU; pfam01895 309801004961 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 309801004962 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 309801004963 Walker A/P-loop; other site 309801004964 ATP binding site [chemical binding]; other site 309801004965 Q-loop/lid; other site 309801004966 ABC transporter signature motif; other site 309801004967 Walker B; other site 309801004968 D-loop; other site 309801004969 H-loop/switch region; other site 309801004970 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 309801004971 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 309801004972 Walker A/P-loop; other site 309801004973 ATP binding site [chemical binding]; other site 309801004974 Q-loop/lid; other site 309801004975 ABC transporter signature motif; other site 309801004976 Walker B; other site 309801004977 D-loop; other site 309801004978 H-loop/switch region; other site 309801004979 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801004980 dimer interface [polypeptide binding]; other site 309801004981 conserved gate region; other site 309801004982 putative PBP binding loops; other site 309801004983 ABC-ATPase subunit interface; other site 309801004984 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 309801004985 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801004986 dimer interface [polypeptide binding]; other site 309801004987 conserved gate region; other site 309801004988 putative PBP binding loops; other site 309801004989 ABC-ATPase subunit interface; other site 309801004990 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 309801004991 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309801004992 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801004993 active site 309801004994 phosphorylation site [posttranslational modification] 309801004995 intermolecular recognition site; other site 309801004996 dimerization interface [polypeptide binding]; other site 309801004997 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 309801004998 DNA binding site [nucleotide binding] 309801004999 Response regulator receiver domain; Region: Response_reg; pfam00072 309801005000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 309801005001 active site 309801005002 phosphorylation site [posttranslational modification] 309801005003 intermolecular recognition site; other site 309801005004 dimerization interface [polypeptide binding]; other site 309801005005 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 309801005006 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 309801005007 Protein of unknown function DUF72; Region: DUF72; cl00777 309801005008 Sulfatase; Region: Sulfatase; cl10460 309801005009 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_10; cd08515 309801005010 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801005011 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 309801005012 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005013 dimer interface [polypeptide binding]; other site 309801005014 conserved gate region; other site 309801005015 ABC-ATPase subunit interface; other site 309801005016 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801005017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005018 dimer interface [polypeptide binding]; other site 309801005019 conserved gate region; other site 309801005020 putative PBP binding loops; other site 309801005021 ABC-ATPase subunit interface; other site 309801005022 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 309801005023 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 309801005024 active site 309801005025 nucleotide binding site [chemical binding]; other site 309801005026 HIGH motif; other site 309801005027 KMSKS motif; other site 309801005028 MviN-like protein; Region: MVIN; pfam03023 309801005029 cytosine deaminase; Provisional; Region: PRK05985 309801005030 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 309801005031 active site 309801005032 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 309801005033 putative active site [active] 309801005034 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 309801005035 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801005036 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801005037 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 309801005038 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801005039 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801005040 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 309801005041 S-adenosylmethionine binding site [chemical binding]; other site 309801005042 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 309801005043 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 309801005044 putative metal binding site [ion binding]; other site 309801005045 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 309801005046 active site 309801005047 metal binding site [ion binding]; metal-binding site 309801005048 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 309801005049 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 309801005050 oligomer interface [polypeptide binding]; other site 309801005051 active site 309801005052 metal binding site [ion binding]; metal-binding site 309801005053 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 309801005054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801005055 YGGT family; Region: YGGT; cl00508 309801005056 Uncharacterized conserved protein [Function unknown]; Region: COG3535 309801005057 Protein of unknown function (DUF917); Region: DUF917; pfam06032 309801005058 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 309801005059 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 309801005060 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 309801005061 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; cl11420 309801005062 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 309801005063 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 309801005064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005065 dimer interface [polypeptide binding]; other site 309801005066 conserved gate region; other site 309801005067 putative PBP binding loops; other site 309801005068 ABC-ATPase subunit interface; other site 309801005069 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801005070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005071 dimer interface [polypeptide binding]; other site 309801005072 conserved gate region; other site 309801005073 putative PBP binding loops; other site 309801005074 ABC-ATPase subunit interface; other site 309801005075 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 309801005076 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801005077 Acylphosphatase; Region: Acylphosphatase; cl00551 309801005078 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 309801005079 HypF finger; Region: zf-HYPF; pfam07503 309801005080 HypF finger; Region: zf-HYPF; pfam07503 309801005081 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 309801005082 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801005083 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 309801005084 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 309801005085 dimer interface [polypeptide binding]; other site 309801005086 active site 309801005087 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 309801005088 dimerization interface [polypeptide binding]; other site 309801005089 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 309801005090 ATP binding site [chemical binding]; other site 309801005091 Hydrogenase formation hypA family; Region: HypD; cl12072 309801005092 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 309801005093 HupF/HypC family; Region: HupF_HypC; cl00394 309801005094 HupF/HypC family; Region: HupF_HypC; cl00394 309801005095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801005096 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 309801005097 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; cl00418 309801005098 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 309801005099 nickel binding site [ion binding]; other site 309801005100 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 309801005101 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 309801005102 phosphodiesterase; Provisional; Region: PRK12704 309801005103 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 309801005104 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 309801005105 phosphopeptide binding site; other site 309801005106 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 309801005107 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801005108 putative substrate translocation pore; other site 309801005109 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 309801005110 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 309801005111 tetramer interface [polypeptide binding]; other site 309801005112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801005113 catalytic residue [active] 309801005114 DinB superfamily; Region: DinB_2; cl00986 309801005115 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 309801005116 aromatic arch; other site 309801005117 DCoH dimer interaction site [polypeptide binding]; other site 309801005118 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 309801005119 DCoH tetramer interaction site [polypeptide binding]; other site 309801005120 substrate binding site [chemical binding]; other site 309801005121 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 309801005122 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 309801005123 motif II; other site 309801005124 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 309801005125 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 309801005126 active site 309801005127 HIGH motif; other site 309801005128 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 309801005129 active site 309801005130 KMSKS motif; other site 309801005131 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 309801005132 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801005133 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 309801005134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309801005135 putative ADP-binding pocket [chemical binding]; other site 309801005136 threonine synthase; Validated; Region: PRK08197 309801005137 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 309801005138 homodimer interface [polypeptide binding]; other site 309801005139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801005140 catalytic residue [active] 309801005141 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 309801005142 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 309801005143 DNA binding site [nucleotide binding] 309801005144 catalytic residue [active] 309801005145 H2TH interface [polypeptide binding]; other site 309801005146 putative catalytic residues [active] 309801005147 turnover-facilitating residue; other site 309801005148 intercalation triad [nucleotide binding]; other site 309801005149 8OG recognition residue [nucleotide binding]; other site 309801005150 putative reading head residues; other site 309801005151 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 309801005152 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 309801005153 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 309801005154 nucleotide binding site/active site [active] 309801005155 HIT family signature motif; other site 309801005156 catalytic residue [active] 309801005157 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 309801005158 VPS10 domain; Region: VPS10; smart00602 309801005159 VPS10 domain; Region: VPS10; smart00602 309801005160 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801005161 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 309801005162 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 309801005163 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 309801005164 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 309801005165 classical (c) SDRs; Region: SDR_c; cd05233 309801005166 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 309801005167 NAD(P) binding site [chemical binding]; other site 309801005168 active site 309801005169 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 309801005170 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309801005171 GAF domain; Region: GAF; cl00853 309801005172 PAS domain S-box; Region: sensory_box; TIGR00229 309801005173 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 309801005174 putative active site [active] 309801005175 heme pocket [chemical binding]; other site 309801005176 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 309801005177 metal binding site [ion binding]; metal-binding site 309801005178 active site 309801005179 I-site; other site 309801005180 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 309801005181 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 309801005182 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 309801005183 active site 309801005184 HIGH motif; other site 309801005185 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 309801005186 KMSKS motif; other site 309801005187 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801005188 Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are...; Region: PRX_family; cd02971 309801005189 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 309801005190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801005191 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801005192 DinB superfamily; Region: DinB_2; cl00986 309801005193 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 309801005194 active site 309801005195 metal binding site [ion binding]; metal-binding site 309801005196 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 309801005197 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 309801005198 active site 309801005199 motif I; other site 309801005200 motif II; other site 309801005201 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801005202 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 309801005203 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 309801005204 dimer interface [polypeptide binding]; other site 309801005205 substrate binding site [chemical binding]; other site 309801005206 metal binding site [ion binding]; metal-binding site 309801005207 Septum formation topological specificity factor MinE; Region: MinE; cl00538 309801005208 septum site-determining protein MinD; Region: minD_bact; TIGR01968 309801005209 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 309801005210 Switch I; other site 309801005211 Switch II; other site 309801005212 septum formation inhibitor; Reviewed; Region: minC; PRK00513 309801005213 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 309801005214 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 309801005215 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 309801005216 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 309801005217 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 309801005218 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 309801005219 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801005220 active site 309801005221 metal binding site [ion binding]; metal-binding site 309801005222 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801005223 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 309801005224 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 309801005225 trehalose synthase; Region: treS_nterm; TIGR02456 309801005226 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 309801005227 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 309801005228 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 309801005229 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 309801005230 glycogen branching enzyme; Provisional; Region: PRK05402 309801005231 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 309801005232 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 309801005233 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 309801005234 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 309801005235 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 309801005236 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 309801005237 catalytic triad [active] 309801005238 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; cl03910 309801005239 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801005240 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 309801005241 rod shape-determining protein MreC; Provisional; Region: PRK13922 309801005242 rod shape-determining protein MreC; Region: MreC; pfam04085 309801005243 rod shape-determining protein MreB; Provisional; Region: PRK13927 309801005244 Cell division protein FtsA; Region: FtsA; cl11496 309801005245 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 309801005246 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 309801005247 putative peptidoglycan binding site; other site 309801005248 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 309801005249 Peptidase family M23; Region: Peptidase_M23; pfam01551 309801005250 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 309801005251 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 309801005252 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 309801005253 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 309801005254 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 309801005255 NAD(P) binding site [chemical binding]; other site 309801005256 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 309801005257 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 309801005258 active site 309801005259 putative substrate binding pocket [chemical binding]; other site 309801005260 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 309801005261 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 309801005262 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 309801005263 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 309801005264 active site pocket [active] 309801005265 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 309801005266 Low-density lipoprotein receptor repeat class B; Region: Ldl_recept_b; cl10508 309801005267 extended (e) SDRs; Region: SDR_e; cd08946 309801005268 NAD(P) binding site [chemical binding]; other site 309801005269 active site 309801005270 substrate binding site [chemical binding]; other site 309801005271 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 309801005272 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005273 putative PBP binding loops; other site 309801005274 dimer interface [polypeptide binding]; other site 309801005275 ABC-ATPase subunit interface; other site 309801005276 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801005277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 309801005278 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 309801005279 substrate binding site [chemical binding]; other site 309801005280 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 309801005281 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 309801005282 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 309801005283 Walker A/P-loop; other site 309801005284 ATP binding site [chemical binding]; other site 309801005285 Q-loop/lid; other site 309801005286 ABC transporter signature motif; other site 309801005287 Walker B; other site 309801005288 D-loop; other site 309801005289 H-loop/switch region; other site 309801005290 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 309801005291 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 309801005292 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 309801005293 Walker A/P-loop; other site 309801005294 ATP binding site [chemical binding]; other site 309801005295 Q-loop/lid; other site 309801005296 ABC transporter signature motif; other site 309801005297 Walker B; other site 309801005298 D-loop; other site 309801005299 H-loop/switch region; other site 309801005300 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 309801005301 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 309801005302 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 309801005303 active site pocket [active] 309801005304 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; cl09108 309801005305 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 309801005306 metal binding site [ion binding]; metal-binding site 309801005307 substrate binding pocket [chemical binding]; other site 309801005308 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 309801005309 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 309801005310 active site pocket [active] 309801005311 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 309801005312 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 309801005313 putative peptidoglycan binding site; other site 309801005314 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801005315 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 309801005316 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309801005317 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 309801005318 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 309801005319 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 309801005320 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 309801005321 Transglycosylase; Region: Transgly; cl07896 309801005322 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 309801005323 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 309801005324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801005325 Polysulphide reductase, NrfD; Region: NrfD; cl01295 309801005326 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 309801005327 4Fe-4S binding domain; Region: Fer4; cl02805 309801005328 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 309801005329 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801005330 molybdopterin cofactor binding site; other site 309801005331 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801005332 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801005333 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 309801005334 molybdopterin cofactor binding site; other site 309801005335 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 309801005336 Ligand Binding Site [chemical binding]; other site 309801005337 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 309801005338 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 309801005339 HEPN domain; Region: HEPN; cl00824 309801005340 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309801005341 active site 309801005342 NTP binding site [chemical binding]; other site 309801005343 metal binding triad [ion binding]; metal-binding site 309801005344 antibiotic binding site [chemical binding]; other site 309801005345 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 309801005346 putative catalytic site [active] 309801005347 putative metal binding site [ion binding]; other site 309801005348 putative phosphate binding site [ion binding]; other site 309801005349 Mechanosensitive ion channel; Region: MS_channel; pfam00924 309801005350 Plant Basic Secretory Protein; Region: BSP; pfam04450 309801005351 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 309801005352 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 309801005353 NAD(P) binding site [chemical binding]; other site 309801005354 catalytic residues [active] 309801005355 Domain of unknown function DUF20; Region: UPF0118; cl00465 309801005356 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801005357 MFS_1 like family; Region: MFS_1_like; pfam12832 309801005358 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 309801005359 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 309801005360 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 309801005361 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 309801005362 HIT family signature motif; other site 309801005363 catalytic residue [active] 309801005364 Isochorismatase family; Region: Isochorismatase; pfam00857 309801005365 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 309801005366 catalytic triad [active] 309801005367 conserved cis-peptide bond; other site 309801005368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 309801005369 short chain dehydrogenase; Provisional; Region: PRK06841 309801005370 classical (c) SDRs; Region: SDR_c; cd05233 309801005371 NAD(P) binding site [chemical binding]; other site 309801005372 active site 309801005373 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 309801005374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801005375 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 309801005376 putative FMN binding site [chemical binding]; other site 309801005377 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 309801005378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801005379 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309801005380 active site 309801005381 NTP binding site [chemical binding]; other site 309801005382 metal binding triad [ion binding]; metal-binding site 309801005383 antibiotic binding site [chemical binding]; other site 309801005384 HEPN domain; Region: HEPN; cl00824 309801005385 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 309801005386 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 309801005387 putative dimer interface [polypeptide binding]; other site 309801005388 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 309801005389 BON domain; Region: BON; cl02771 309801005390 BON domain; Region: BON; cl02771 309801005391 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801005392 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 309801005393 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 309801005394 Walker A/P-loop; other site 309801005395 ATP binding site [chemical binding]; other site 309801005396 Q-loop/lid; other site 309801005397 ABC transporter signature motif; other site 309801005398 Walker B; other site 309801005399 D-loop; other site 309801005400 H-loop/switch region; other site 309801005401 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 309801005402 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 309801005403 TM-ABC transporter signature motif; other site 309801005404 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 309801005405 TM-ABC transporter signature motif; other site 309801005406 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 309801005407 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 309801005408 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 309801005409 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 309801005410 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 309801005411 flagellar motor protein MotD; Reviewed; Region: PRK09038 309801005412 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 309801005413 ligand binding site [chemical binding]; other site 309801005414 flagellar motor protein MotA; Validated; Region: PRK08124 309801005415 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 309801005416 Flagellar protein (FlbD); Region: FlbD; cl00683 309801005417 FliP family; Region: FliP; cl00593 309801005418 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 309801005419 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 309801005420 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 309801005421 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 309801005422 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 309801005423 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 309801005424 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 309801005425 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 309801005426 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801005427 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 309801005428 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 309801005429 DNA binding residues [nucleotide binding] 309801005430 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 309801005431 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 309801005432 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 309801005433 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 309801005434 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 309801005435 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 309801005436 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 309801005437 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 309801005438 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 309801005439 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 309801005440 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 309801005441 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 309801005442 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 309801005443 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 309801005444 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 309801005445 FliW protein; Region: FliW; cl00740 309801005446 Global regulator protein family; Region: CsrA; cl00670 309801005447 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 309801005448 DinB superfamily; Region: DinB_2; cl00986 309801005449 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 309801005450 nudix motif; other site 309801005451 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 309801005452 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801005453 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801005454 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801005455 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801005456 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 309801005457 molybdopterin cofactor binding site; other site 309801005458 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 309801005459 4Fe-4S binding domain; Region: Fer4; cl02805 309801005460 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 309801005461 Predicted permease; Region: DUF318; cl00487 309801005462 Protein of unknown function, DUF488; Region: DUF488; cl01246 309801005463 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 309801005464 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 309801005465 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 309801005466 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 309801005467 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801005468 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801005469 hypothetical protein; Provisional; Region: PRK08296 309801005470 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 309801005471 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 309801005472 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 309801005473 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 309801005474 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 309801005475 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 309801005476 Putative cyclase; Region: Cyclase; cl00814 309801005477 Transcriptional regulators [Transcription]; Region: GntR; COG1802 309801005478 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 309801005479 DNA-binding site [nucleotide binding]; DNA binding site 309801005480 FCD domain; Region: FCD; cl11656 309801005481 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 309801005482 Uncharacterised protein family (UPF0261); Region: UPF0261; cl02262 309801005483 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 309801005484 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 309801005485 Walker A/P-loop; other site 309801005486 ATP binding site [chemical binding]; other site 309801005487 Q-loop/lid; other site 309801005488 ABC transporter signature motif; other site 309801005489 Walker B; other site 309801005490 D-loop; other site 309801005491 H-loop/switch region; other site 309801005492 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 309801005493 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 309801005494 Walker A/P-loop; other site 309801005495 ATP binding site [chemical binding]; other site 309801005496 Q-loop/lid; other site 309801005497 ABC transporter signature motif; other site 309801005498 Walker B; other site 309801005499 D-loop; other site 309801005500 H-loop/switch region; other site 309801005501 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 309801005502 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 309801005503 putative ligand binding site [chemical binding]; other site 309801005504 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 309801005505 TM-ABC transporter signature motif; other site 309801005506 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 309801005507 TM-ABC transporter signature motif; other site 309801005508 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 309801005509 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 309801005510 dimer interface [polypeptide binding]; other site 309801005511 putative metal binding site [ion binding]; other site 309801005512 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309801005513 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 309801005514 putative NAD(P) binding site [chemical binding]; other site 309801005515 putative active site [active] 309801005516 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 309801005517 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 309801005518 Walker A/P-loop; other site 309801005519 ATP binding site [chemical binding]; other site 309801005520 Q-loop/lid; other site 309801005521 ABC transporter signature motif; other site 309801005522 Walker B; other site 309801005523 D-loop; other site 309801005524 H-loop/switch region; other site 309801005525 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 309801005526 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 309801005527 Walker A/P-loop; other site 309801005528 ATP binding site [chemical binding]; other site 309801005529 Q-loop/lid; other site 309801005530 ABC transporter signature motif; other site 309801005531 Walker B; other site 309801005532 D-loop; other site 309801005533 H-loop/switch region; other site 309801005534 Cobalt transport protein; Region: CbiQ; cl00463 309801005535 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 309801005536 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309801005537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801005538 Walker A/P-loop; other site 309801005539 ATP binding site [chemical binding]; other site 309801005540 Q-loop/lid; other site 309801005541 ABC transporter signature motif; other site 309801005542 Walker B; other site 309801005543 D-loop; other site 309801005544 H-loop/switch region; other site 309801005545 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 309801005546 putative substrate translocation pore; other site 309801005547 Protein of unknown function (DUF419); Region: DUF419; cl15265 309801005548 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801005549 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 309801005550 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; cl12011 309801005551 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 309801005552 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 309801005553 substrate binding site [chemical binding]; other site 309801005554 trimer interface [polypeptide binding]; other site 309801005555 oxyanion hole (OAH) forming residues; other site 309801005556 enoyl-CoA hydratase; Provisional; Region: PRK05862 309801005557 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 309801005558 substrate binding site [chemical binding]; other site 309801005559 oxyanion hole (OAH) forming residues; other site 309801005560 trimer interface [polypeptide binding]; other site 309801005561 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 309801005562 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 309801005563 Sulfatase; Region: Sulfatase; cl10460 309801005564 putative ATP-dependent protease; Region: PHA01747; cl11979 309801005565 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 309801005566 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 309801005567 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801005568 catalytic residue [active] 309801005569 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09702 309801005570 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 309801005571 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 309801005572 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cl01317 309801005573 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 309801005574 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 309801005575 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 309801005576 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 309801005577 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 309801005578 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 309801005579 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 309801005580 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 309801005581 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309801005582 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 309801005583 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 309801005584 metal binding site [ion binding]; metal-binding site 309801005585 putative dimer interface [polypeptide binding]; other site 309801005586 Nuclease-related domain; Region: NERD; pfam08378 309801005587 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 309801005588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801005589 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309801005590 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309801005591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801005592 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; cl15358 309801005593 Anti-sigma-K factor rskA; Region: RskA; cl15366 309801005594 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 309801005595 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801005596 active site 309801005597 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801005598 active site 309801005599 Vitamin K epoxide reductase family; Region: VKOR; cl01729 309801005600 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801005601 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 309801005602 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 309801005603 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 309801005604 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 309801005605 GTPase RsgA; Reviewed; Region: PRK00098 309801005606 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 309801005607 GTPase/OB domain interface [polypeptide binding]; other site 309801005608 GTPase/Zn-binding domain interface [polypeptide binding]; other site 309801005609 GTP/Mg2+ binding site [chemical binding]; other site 309801005610 G4 box; other site 309801005611 G5 box; other site 309801005612 G1 box; other site 309801005613 Switch I region; other site 309801005614 G2 box; other site 309801005615 G3 box; other site 309801005616 Switch II region; other site 309801005617 DinB superfamily; Region: DinB_2; cl00986 309801005618 Transcriptional regulators [Transcription]; Region: FadR; COG2186 309801005619 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 309801005620 DNA-binding site [nucleotide binding]; DNA binding site 309801005621 FCD domain; Region: FCD; cl11656 309801005622 Response regulator receiver domain; Region: Response_reg; pfam00072 309801005623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801005624 active site 309801005625 phosphorylation site [posttranslational modification] 309801005626 intermolecular recognition site; other site 309801005627 dimerization interface [polypeptide binding]; other site 309801005628 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 309801005629 alanine racemase; Reviewed; Region: alr; PRK00053 309801005630 active site 309801005631 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 309801005632 dimer interface [polypeptide binding]; other site 309801005633 substrate binding site [chemical binding]; other site 309801005634 catalytic residues [active] 309801005635 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 309801005636 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 309801005637 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801005638 PYR/PP interface [polypeptide binding]; other site 309801005639 dimer interface [polypeptide binding]; other site 309801005640 TPP binding site [chemical binding]; other site 309801005641 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801005642 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 309801005643 TPP-binding site [chemical binding]; other site 309801005644 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 309801005645 Proline racemase; Region: Pro_racemase; pfam05544 309801005646 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801005647 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 309801005648 ABC-2 type transporter; Region: ABC2_membrane; cl11417 309801005649 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 309801005650 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 309801005651 Walker A/P-loop; other site 309801005652 ATP binding site [chemical binding]; other site 309801005653 Q-loop/lid; other site 309801005654 ABC transporter signature motif; other site 309801005655 Walker B; other site 309801005656 D-loop; other site 309801005657 H-loop/switch region; other site 309801005658 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 309801005659 coenzyme A binding site [chemical binding]; other site 309801005660 citrylCoA binding site [chemical binding]; other site 309801005661 oxalacetate binding site [chemical binding]; other site 309801005662 catalytic triad [active] 309801005663 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 309801005664 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 309801005665 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 309801005666 tetramer interface [polypeptide binding]; other site 309801005667 active site 309801005668 Mg2+/Mn2+ binding site [ion binding]; other site 309801005669 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 309801005670 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 309801005671 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 309801005672 metal binding site 2 [ion binding]; metal-binding site 309801005673 putative DNA binding helix; other site 309801005674 metal binding site 1 [ion binding]; metal-binding site 309801005675 dimer interface [polypeptide binding]; other site 309801005676 structural Zn2+ binding site [ion binding]; other site 309801005677 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 309801005678 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 309801005679 intersubunit interface [polypeptide binding]; other site 309801005680 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 309801005681 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 309801005682 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 309801005683 ABC-ATPase subunit interface; other site 309801005684 dimer interface [polypeptide binding]; other site 309801005685 DsrE/DsrF-like family; Region: DrsE; cl00672 309801005686 NosL; Region: NosL; cl01769 309801005687 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 309801005688 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 309801005689 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 309801005690 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 309801005691 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 309801005692 Walker A/P-loop; other site 309801005693 ATP binding site [chemical binding]; other site 309801005694 Q-loop/lid; other site 309801005695 ABC transporter signature motif; other site 309801005696 Walker B; other site 309801005697 D-loop; other site 309801005698 H-loop/switch region; other site 309801005699 nitrous-oxide reductase; Validated; Region: PRK02888 309801005700 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801005701 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 309801005702 Fe-S cluster binding site [ion binding]; other site 309801005703 DNA binding site [nucleotide binding] 309801005704 active site 309801005705 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 309801005706 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 309801005707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801005708 catalytic residue [active] 309801005709 Cation efflux family; Region: Cation_efflux; cl00316 309801005710 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 309801005711 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 309801005712 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 309801005713 Cysteine-rich domain; Region: CCG; pfam02754 309801005714 Cysteine-rich domain; Region: CCG; pfam02754 309801005715 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 309801005716 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 309801005717 PilZ domain; Region: PilZ; cl01260 309801005718 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 309801005719 flagellin; Reviewed; Region: PRK08869 309801005720 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 309801005721 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 309801005722 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; cl12011 309801005723 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 309801005724 CheB methylesterase; Region: CheB_methylest; pfam01339 309801005725 Response regulator receiver domain; Region: Response_reg; pfam00072 309801005726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801005727 active site 309801005728 phosphorylation site [posttranslational modification] 309801005729 intermolecular recognition site; other site 309801005730 dimerization interface [polypeptide binding]; other site 309801005731 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 309801005732 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 309801005733 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 309801005734 dimerization interface [polypeptide binding]; other site 309801005735 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 309801005736 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 309801005737 putative binding surface; other site 309801005738 active site 309801005739 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 309801005740 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 309801005741 ATP binding site [chemical binding]; other site 309801005742 Mg2+ binding site [ion binding]; other site 309801005743 G-X-G motif; other site 309801005744 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 309801005745 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 309801005746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801005747 active site 309801005748 phosphorylation site [posttranslational modification] 309801005749 intermolecular recognition site; other site 309801005750 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 309801005751 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 309801005752 dimerization interface [polypeptide binding]; other site 309801005753 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 309801005754 FlaG protein; Region: FlaG; cl00591 309801005755 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 309801005756 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 309801005757 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 309801005758 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 309801005759 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 309801005760 Flagellar protein FliS; Region: FliS; cl00654 309801005761 Flagellar protein FliT; Region: FliT; cl05125 309801005762 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 309801005763 active site 309801005764 catalytic site [active] 309801005765 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 309801005766 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801005767 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801005768 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801005769 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309801005770 classical (c) SDRs; Region: SDR_c; cd05233 309801005771 NAD(P) binding site [chemical binding]; other site 309801005772 active site 309801005773 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309801005774 classical (c) SDRs; Region: SDR_c; cd05233 309801005775 NAD(P) binding site [chemical binding]; other site 309801005776 active site 309801005777 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 309801005778 non-specific DNA binding site [nucleotide binding]; other site 309801005779 salt bridge; other site 309801005780 sequence-specific DNA binding site [nucleotide binding]; other site 309801005781 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 309801005782 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 309801005783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005784 dimer interface [polypeptide binding]; other site 309801005785 conserved gate region; other site 309801005786 putative PBP binding loops; other site 309801005787 ABC-ATPase subunit interface; other site 309801005788 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 309801005789 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 309801005790 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 309801005791 putative active site [active] 309801005792 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 309801005793 Ligand Binding Site [chemical binding]; other site 309801005794 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 309801005795 Ligand Binding Site [chemical binding]; other site 309801005796 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 309801005797 HEPN domain; Region: HEPN; cl00824 309801005798 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309801005799 active site 309801005800 NTP binding site [chemical binding]; other site 309801005801 metal binding triad [ion binding]; metal-binding site 309801005802 antibiotic binding site [chemical binding]; other site 309801005803 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801005804 active site 309801005805 metal binding site [ion binding]; metal-binding site 309801005806 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 309801005807 Cupin domain; Region: Cupin_2; cl09118 309801005808 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 309801005809 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 309801005810 Walker A/P-loop; other site 309801005811 ATP binding site [chemical binding]; other site 309801005812 Q-loop/lid; other site 309801005813 ABC transporter signature motif; other site 309801005814 Walker B; other site 309801005815 D-loop; other site 309801005816 H-loop/switch region; other site 309801005817 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 309801005818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005819 dimer interface [polypeptide binding]; other site 309801005820 conserved gate region; other site 309801005821 putative PBP binding loops; other site 309801005822 ABC-ATPase subunit interface; other site 309801005823 Putative cyclase; Region: Cyclase; cl00814 309801005824 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801005825 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 309801005826 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 309801005827 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 309801005828 envelope glycoprotein I; Provisional; Region: PHA03291 309801005829 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 309801005830 Sporulation and spore germination; Region: Germane; cl11253 309801005831 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 309801005832 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801005833 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309801005834 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801005835 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 309801005836 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 309801005837 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 309801005838 dimer interface [polypeptide binding]; other site 309801005839 tetramer interface [polypeptide binding]; other site 309801005840 PYR/PP interface [polypeptide binding]; other site 309801005841 TPP binding site [chemical binding]; other site 309801005842 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 309801005843 TPP-binding site; other site 309801005844 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 309801005845 chorismate binding enzyme; Region: Chorismate_bind; cl10555 309801005846 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 309801005847 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801005848 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 309801005849 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 309801005850 putative active site [active] 309801005851 catalytic site [active] 309801005852 putative metal binding site [ion binding]; other site 309801005853 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 309801005854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005855 putative PBP binding loops; other site 309801005856 ABC-ATPase subunit interface; other site 309801005857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005858 dimer interface [polypeptide binding]; other site 309801005859 conserved gate region; other site 309801005860 putative PBP binding loops; other site 309801005861 ABC-ATPase subunit interface; other site 309801005862 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 309801005863 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 309801005864 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 309801005865 nudix motif; other site 309801005866 probable regulatory domain; Region: near_KaiC_dom; TIGR03879 309801005867 KaiC domain protein, Ph0284 family; Region: thermo_KaiC_1; TIGR03877 309801005868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801005869 Walker A motif; other site 309801005870 ATP binding site [chemical binding]; other site 309801005871 Walker B motif; other site 309801005872 Thymidylate synthase complementing protein; Region: Thy1; cl03630 309801005873 Thymidylate synthase complementing protein; Region: Thy1; cl03630 309801005874 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 309801005875 Protein of unknown function (DUF499); Region: DUF499; cl15396 309801005876 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 309801005877 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 309801005878 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 309801005879 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 309801005880 putative active site [active] 309801005881 catalytic site [active] 309801005882 DEAD-like helicases superfamily; Region: DEXDc; smart00487 309801005883 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 309801005884 nucleotide binding region [chemical binding]; other site 309801005885 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 309801005886 ATP-binding site [chemical binding]; other site 309801005887 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 309801005888 putative active site [active] 309801005889 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 309801005890 putative active site [active] 309801005891 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 309801005892 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 309801005893 protein binding site [polypeptide binding]; other site 309801005894 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309801005895 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 309801005896 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 309801005897 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 309801005898 Permease family; Region: Xan_ur_permease; cl00967 309801005899 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 309801005900 Cation efflux family; Region: Cation_efflux; cl00316 309801005901 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 309801005902 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 309801005903 substrate binding site [chemical binding]; other site 309801005904 oxyanion hole (OAH) forming residues; other site 309801005905 trimer interface [polypeptide binding]; other site 309801005906 UbiA prenyltransferase family; Region: UbiA; cl00337 309801005907 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; cl09108 309801005908 metal binding site [ion binding]; metal-binding site 309801005909 substrate binding pocket [chemical binding]; other site 309801005910 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 309801005911 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801005912 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 309801005913 Malic enzyme, N-terminal domain; Region: malic; pfam00390 309801005914 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 309801005915 putative NAD(P) binding site [chemical binding]; other site 309801005916 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 309801005917 Malic enzyme, N-terminal domain; Region: malic; pfam00390 309801005918 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 309801005919 putative NAD(P) binding site [chemical binding]; other site 309801005920 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 309801005921 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 309801005922 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309801005923 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 309801005924 motif II; other site 309801005925 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 309801005926 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 309801005927 Ligand Binding Site [chemical binding]; other site 309801005928 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 309801005929 Ligand Binding Site [chemical binding]; other site 309801005930 FOG: CBS domain [General function prediction only]; Region: COG0517 309801005931 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 309801005932 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 309801005933 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 309801005934 protein binding site [polypeptide binding]; other site 309801005935 Bacterial protein of unknown function (DUF894); Region: DUF894; pfam05977 309801005936 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; cl11420 309801005937 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 309801005938 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 309801005939 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 309801005940 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 309801005941 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 309801005942 protein binding site [polypeptide binding]; other site 309801005943 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801005944 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 309801005945 Cupin domain; Region: Cupin_2; cl09118 309801005946 Anti-sigma-K factor rskA; Region: RskA; cl15366 309801005947 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 309801005948 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 309801005949 peptide binding site [polypeptide binding]; other site 309801005950 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 309801005951 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 309801005952 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005953 dimer interface [polypeptide binding]; other site 309801005954 conserved gate region; other site 309801005955 putative PBP binding loops; other site 309801005956 ABC-ATPase subunit interface; other site 309801005957 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 309801005958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801005959 dimer interface [polypeptide binding]; other site 309801005960 conserved gate region; other site 309801005961 putative PBP binding loops; other site 309801005962 ABC-ATPase subunit interface; other site 309801005963 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 309801005964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801005965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801005966 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 309801005967 N-terminal domain of type I, class II extradiol dioxygenases; non-catalytic domain; Region: ED_TypeI_classII_N; cd07240 309801005968 oligomer interface [polypeptide binding]; other site 309801005969 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 309801005970 active site 309801005971 metal binding site [ion binding]; metal-binding site 309801005972 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 309801005973 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801005974 PYR/PP interface [polypeptide binding]; other site 309801005975 dimer interface [polypeptide binding]; other site 309801005976 TPP binding site [chemical binding]; other site 309801005977 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801005978 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 309801005979 TPP-binding site [chemical binding]; other site 309801005980 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 309801005981 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 309801005982 Walker A/P-loop; other site 309801005983 ATP binding site [chemical binding]; other site 309801005984 Q-loop/lid; other site 309801005985 ABC transporter signature motif; other site 309801005986 Walker B; other site 309801005987 D-loop; other site 309801005988 H-loop/switch region; other site 309801005989 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 309801005990 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801005991 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 309801005992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 309801005993 enoyl-CoA hydratase; Provisional; Region: PRK06688 309801005994 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 309801005995 substrate binding site [chemical binding]; other site 309801005996 oxyanion hole (OAH) forming residues; other site 309801005997 trimer interface [polypeptide binding]; other site 309801005998 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 309801005999 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 309801006000 substrate binding site [chemical binding]; other site 309801006001 trimer interface [polypeptide binding]; other site 309801006002 oxyanion hole (OAH) forming residues; other site 309801006003 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 309801006004 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 309801006005 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 309801006006 active site 309801006007 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 309801006008 Protein of unknown function (DUF1185); Region: DUF1185; pfam06684 309801006009 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 309801006010 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801006011 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801006012 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 309801006013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006014 NAD(P) binding site [chemical binding]; other site 309801006015 active site 309801006016 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 309801006017 inter-subunit interface; other site 309801006018 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 309801006019 iron-sulfur cluster [ion binding]; other site 309801006020 [2Fe-2S] cluster binding site [ion binding]; other site 309801006021 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 309801006022 beta subunit interface [polypeptide binding]; other site 309801006023 alpha subunit interface [polypeptide binding]; other site 309801006024 active site 309801006025 substrate binding site [chemical binding]; other site 309801006026 Fe binding site [ion binding]; other site 309801006027 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 309801006028 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; cl09108 309801006029 catalytic residue [active] 309801006030 Transcriptional regulators [Transcription]; Region: GntR; COG1802 309801006031 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 309801006032 DNA-binding site [nucleotide binding]; DNA binding site 309801006033 FCD domain; Region: FCD; cl11656 309801006034 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 309801006035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006036 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 309801006037 Cation transport protein; Region: TrkH; cl10514 309801006038 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 309801006039 Cation transport protein; Region: TrkH; cl10514 309801006040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006041 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 309801006042 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; cl15357 309801006043 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 309801006044 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 309801006045 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 309801006046 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 309801006047 Domain of unknown function DUF21; Region: DUF21; pfam01595 309801006048 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 309801006049 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 309801006050 Transporter associated domain; Region: CorC_HlyC; cl08393 309801006051 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 309801006052 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 309801006053 ABC-2 type transporter; Region: ABC2_membrane; cl11417 309801006054 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 309801006055 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 309801006056 Walker A/P-loop; other site 309801006057 ATP binding site [chemical binding]; other site 309801006058 Q-loop/lid; other site 309801006059 ABC transporter signature motif; other site 309801006060 Walker B; other site 309801006061 D-loop; other site 309801006062 H-loop/switch region; other site 309801006063 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 309801006064 glycerol kinase; Provisional; Region: glpK; PRK00047 309801006065 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 309801006066 N- and C-terminal domain interface [polypeptide binding]; other site 309801006067 putative active site [active] 309801006068 putative MgATP binding site [chemical binding]; other site 309801006069 catalytic site [active] 309801006070 metal binding site [ion binding]; metal-binding site 309801006071 putative homotetramer interface [polypeptide binding]; other site 309801006072 putative glycerol binding site [chemical binding]; other site 309801006073 homodimer interface [polypeptide binding]; other site 309801006074 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 309801006075 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 309801006076 dimer interface [polypeptide binding]; other site 309801006077 putative metal binding site [ion binding]; other site 309801006078 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 309801006079 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 309801006080 inhibitor-cofactor binding pocket; inhibition site 309801006081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801006082 catalytic residue [active] 309801006083 H+ Antiporter protein; Region: 2A0121; TIGR00900 309801006084 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 309801006085 putative substrate translocation pore; other site 309801006086 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 309801006087 putative substrate translocation pore; other site 309801006088 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 309801006089 active site 309801006090 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 309801006091 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 309801006092 active site 309801006093 HIGH motif; other site 309801006094 dimer interface [polypeptide binding]; other site 309801006095 KMSKS motif; other site 309801006096 Cupin domain; Region: Cupin_2; cl09118 309801006097 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 309801006098 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 309801006099 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 309801006100 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 309801006101 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 309801006102 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 309801006103 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 309801006104 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 309801006105 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 309801006106 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 309801006107 active site 309801006108 metal binding site [ion binding]; metal-binding site 309801006109 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 309801006110 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 309801006111 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 309801006112 metal-binding site [ion binding] 309801006113 mercuric reductase; Region: MerA; TIGR02053 309801006114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006115 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 309801006116 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 309801006117 dimer interface [polypeptide binding]; other site 309801006118 [2Fe-2S] cluster binding site [ion binding]; other site 309801006119 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 309801006120 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801006121 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 309801006122 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 309801006123 NAD binding site [chemical binding]; other site 309801006124 catalytic Zn binding site [ion binding]; other site 309801006125 substrate binding site [chemical binding]; other site 309801006126 structural Zn binding site [ion binding]; other site 309801006127 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 309801006128 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801006129 DEAD-like helicases superfamily; Region: DEXDc; smart00487 309801006130 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 309801006131 ATP binding site [chemical binding]; other site 309801006132 putative Mg++ binding site [ion binding]; other site 309801006133 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 309801006134 ATP-binding site [chemical binding]; other site 309801006135 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309801006136 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801006137 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 309801006138 Low-spin heme binding site [chemical binding]; other site 309801006139 D-pathway; other site 309801006140 Putative water exit pathway; other site 309801006141 Binuclear center (active site) [active] 309801006142 K-pathway; other site 309801006143 Putative proton exit pathway; other site 309801006144 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 309801006145 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 309801006146 UbiA prenyltransferase family; Region: UbiA; cl00337 309801006147 Amidinotransferase; Region: Amidinotransf; cl12043 309801006148 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 309801006149 histidinol-phosphatase; Provisional; Region: PRK07328 309801006150 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 309801006151 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 309801006152 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 309801006153 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801006154 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801006155 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 309801006156 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 309801006157 substrate binding site [chemical binding]; other site 309801006158 ATP binding site [chemical binding]; other site 309801006159 Ubiquitin-like proteins; Region: UBQ; cl00155 309801006160 charged pocket; other site 309801006161 hydrophobic patch; other site 309801006162 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 309801006163 Protein of unknown function DUF82; Region: DUF82; pfam01927 309801006164 dihydroorotase; Provisional; Region: PRK09237 309801006165 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 309801006166 active site 309801006167 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 309801006168 trimer interface [polypeptide binding]; other site 309801006169 active site 309801006170 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 309801006171 catalytic residues [active] 309801006172 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 309801006173 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 309801006174 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 309801006175 aspartate kinase; Provisional; Region: PRK06291 309801006176 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 309801006177 putative catalytic residues [active] 309801006178 nucleotide binding site [chemical binding]; other site 309801006179 aspartate binding site [chemical binding]; other site 309801006180 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 309801006181 dimer interface [polypeptide binding]; other site 309801006182 putative threonine allosteric regulatory site; other site 309801006183 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 309801006184 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309801006185 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801006186 Rdx family; Region: Rdx; cl01407 309801006187 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 309801006188 THUMP domain; Region: THUMP; cl12076 309801006189 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 309801006190 Ligand Binding Site [chemical binding]; other site 309801006191 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 309801006192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 309801006193 ethanolamine permease; Region: 2A0305; TIGR00908 309801006194 Amino acid permease; Region: AA_permease; cl00524 309801006195 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 309801006196 classical (c) SDRs; Region: SDR_c; cd05233 309801006197 NAD(P) binding site [chemical binding]; other site 309801006198 active site 309801006199 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 309801006200 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 309801006201 EamA-like transporter family; Region: EamA; cl01037 309801006202 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 309801006203 methionine aminopeptidase; Provisional; Region: PRK08671 309801006204 active site 309801006205 CHRD domain; Region: CHRD; cl06473 309801006206 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801006207 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 309801006208 FtsH Extracellular; Region: FtsH_ext; pfam06480 309801006209 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 309801006210 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 309801006211 Walker A motif; other site 309801006212 ATP binding site [chemical binding]; other site 309801006213 Walker B motif; other site 309801006214 arginine finger; other site 309801006215 Peptidase family M41; Region: Peptidase_M41; pfam01434 309801006216 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 309801006217 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 309801006218 Acyl transferase domain; Region: Acyl_transf_1; cl08282 309801006219 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 309801006220 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 309801006221 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 309801006222 dimer interface [polypeptide binding]; other site 309801006223 active site 309801006224 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 309801006225 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 309801006226 ATP binding site [chemical binding]; other site 309801006227 Mg2+ binding site [ion binding]; other site 309801006228 G-X-G motif; other site 309801006229 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 309801006230 ATP binding site [chemical binding]; other site 309801006231 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 309801006232 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 309801006233 MutS domain I; Region: MutS_I; pfam01624 309801006234 MutS domain II; Region: MutS_II; pfam05188 309801006235 MutS family domain IV; Region: MutS_IV; pfam05190 309801006236 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 309801006237 Walker A/P-loop; other site 309801006238 ATP binding site [chemical binding]; other site 309801006239 Q-loop/lid; other site 309801006240 ABC transporter signature motif; other site 309801006241 Walker B; other site 309801006242 D-loop; other site 309801006243 H-loop/switch region; other site 309801006244 aspartate aminotransferase; Provisional; Region: PRK05764 309801006245 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 309801006246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801006247 homodimer interface [polypeptide binding]; other site 309801006248 catalytic residue [active] 309801006249 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 309801006250 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 309801006251 D-pathway; other site 309801006252 Low-spin heme binding site [chemical binding]; other site 309801006253 Putative water exit pathway; other site 309801006254 Binuclear center (active site) [active] 309801006255 K-pathway; other site 309801006256 Putative proton exit pathway; other site 309801006257 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 309801006258 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 309801006259 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 309801006260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006261 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 309801006262 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 309801006263 active site 309801006264 motif I; other site 309801006265 motif II; other site 309801006266 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 309801006267 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 309801006268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006269 putative amidase; Provisional; Region: PRK06169 309801006270 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 309801006271 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 309801006272 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 309801006273 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 309801006274 putative active site [active] 309801006275 ABC-2 type transporter; Region: ABC2_membrane; cl11417 309801006276 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 309801006277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801006278 dimer interface [polypeptide binding]; other site 309801006279 conserved gate region; other site 309801006280 putative PBP binding loops; other site 309801006281 ABC-ATPase subunit interface; other site 309801006282 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 309801006283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801006284 ABC-ATPase subunit interface; other site 309801006285 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 309801006286 Transcriptional regulators [Transcription]; Region: FadR; COG2186 309801006287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 309801006288 DNA-binding site [nucleotide binding]; DNA binding site 309801006289 FCD domain; Region: FCD; cl11656 309801006290 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 309801006291 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 309801006292 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 309801006293 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 309801006294 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 309801006295 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 309801006296 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 309801006297 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 309801006298 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 309801006299 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 309801006300 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 309801006301 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 309801006302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006304 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 309801006305 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 309801006306 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801006307 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 309801006308 DNA binding residues [nucleotide binding] 309801006309 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 309801006310 Citrate synthase; Region: Citrate_synt; pfam00285 309801006311 oxalacetate binding site [chemical binding]; other site 309801006312 citrylCoA binding site [chemical binding]; other site 309801006313 coenzyme A binding site [chemical binding]; other site 309801006314 catalytic triad [active] 309801006315 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801006316 Walker A motif; other site 309801006317 ATP binding site [chemical binding]; other site 309801006318 Walker B motif; other site 309801006319 MoxR-like ATPases [General function prediction only]; Region: COG0714 309801006320 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801006321 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 309801006322 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 309801006323 metal ion-dependent adhesion site (MIDAS); other site 309801006324 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 309801006325 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 309801006326 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 309801006327 N-terminal domain interface [polypeptide binding]; other site 309801006328 Predicted amidohydrolase [General function prediction only]; Region: COG0388 309801006329 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 309801006330 putative active site [active] 309801006331 catalytic triad [active] 309801006332 dimer interface [polypeptide binding]; other site 309801006333 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 309801006334 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 309801006335 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 309801006336 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 309801006337 Protein of unknown function (DUF554); Region: DUF554; cl00784 309801006338 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 309801006339 diiron binding motif [ion binding]; other site 309801006340 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 309801006341 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 309801006342 FAD binding domain; Region: FAD_binding_4; pfam01565 309801006343 Berberine and berberine like; Region: BBE; pfam08031 309801006344 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 309801006345 active site 309801006346 dimer interface [polypeptide binding]; other site 309801006347 catalytic nucleophile [active] 309801006348 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 309801006349 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 309801006350 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 309801006351 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 309801006352 generic binding surface II; other site 309801006353 generic binding surface I; other site 309801006354 Y-family of DNA polymerases; Region: PolY; cl12025 309801006355 DNA binding site [nucleotide binding] 309801006356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801006357 Walker A motif; other site 309801006358 ATP binding site [chemical binding]; other site 309801006359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801006360 Chromate transporter; Region: Chromate_transp; pfam02417 309801006361 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 309801006362 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801006363 Walker A/P-loop; other site 309801006364 ATP binding site [chemical binding]; other site 309801006365 Q-loop/lid; other site 309801006366 ABC transporter signature motif; other site 309801006367 Walker B; other site 309801006368 D-loop; other site 309801006369 H-loop/switch region; other site 309801006370 TOBE domain; Region: TOBE_2; cl01440 309801006371 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 309801006372 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801006373 dimer interface [polypeptide binding]; other site 309801006374 conserved gate region; other site 309801006375 putative PBP binding loops; other site 309801006376 ABC-ATPase subunit interface; other site 309801006377 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 309801006378 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801006379 Bacterial transcriptional regulator; Region: IclR; pfam01614 309801006380 Domain of unknown function DUF59; Region: DUF59; cl00941 309801006381 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 309801006382 active site 309801006383 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 309801006384 D-arabinose dehydrogenase; Region: arabinose_DH_like; cd05284 309801006385 NAD binding site [chemical binding]; other site 309801006386 substrate binding site [chemical binding]; other site 309801006387 catalytic Zn binding site [ion binding]; other site 309801006388 structural Zn binding site [ion binding]; other site 309801006389 Isochorismatase family; Region: Isochorismatase; pfam00857 309801006390 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 309801006391 catalytic triad [active] 309801006392 conserved cis-peptide bond; other site 309801006393 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 309801006394 active site 309801006395 catalytic residues [active] 309801006396 metal binding site [ion binding]; metal-binding site 309801006397 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 309801006398 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 309801006399 Ligand Binding Site [chemical binding]; other site 309801006400 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 309801006401 Ligand Binding Site [chemical binding]; other site 309801006402 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 309801006403 OsmC-like protein; Region: OsmC; cl00767 309801006404 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 309801006405 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 309801006406 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 309801006407 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309801006408 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801006409 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 309801006410 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 309801006411 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 309801006412 Integral membrane protein DUF92; Region: DUF92; cl00793 309801006413 Integral membrane protein DUF92; Region: DUF92; cl00793 309801006414 Chlorite dismutase; Region: Chlor_dismutase; cl01280 309801006415 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 309801006416 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 309801006417 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 309801006418 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 309801006419 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 309801006420 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 309801006421 aconitate hydratase; Validated; Region: PRK09277 309801006422 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 309801006423 substrate binding site [chemical binding]; other site 309801006424 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 309801006425 ligand binding site [chemical binding]; other site 309801006426 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 309801006427 substrate binding site [chemical binding]; other site 309801006428 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 309801006429 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 309801006430 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 309801006431 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 309801006432 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801006433 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801006434 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 309801006435 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 309801006436 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 309801006437 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 309801006438 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 309801006439 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 309801006440 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801006441 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 309801006442 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 309801006443 Ligand binding site; other site 309801006444 metal-binding site 309801006445 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 309801006446 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801006447 active site 309801006448 phosphorylation site [posttranslational modification] 309801006449 intermolecular recognition site; other site 309801006450 dimerization interface [polypeptide binding]; other site 309801006451 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 309801006452 DNA binding residues [nucleotide binding] 309801006453 dimerization interface [polypeptide binding]; other site 309801006454 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 309801006455 GAF domain; Region: GAF; cl00853 309801006456 Histidine kinase; Region: HisKA_3; pfam07730 309801006457 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 309801006458 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 309801006459 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 309801006460 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 309801006461 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 309801006462 active site 309801006463 GAF domain; Region: GAF; cl00853 309801006464 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 309801006465 metal binding site [ion binding]; metal-binding site 309801006466 active site 309801006467 I-site; other site 309801006468 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 309801006469 putative substrate translocation pore; other site 309801006470 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 309801006471 Domain of unknown function (DUF205); Region: DUF205; cl00410 309801006472 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 309801006473 DAK2 domain; Region: Dak2; cl03685 309801006474 Peptidase family U32; Region: Peptidase_U32; cl03113 309801006475 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 309801006476 TM-ABC transporter signature motif; other site 309801006477 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 309801006478 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801006479 galactonate dehydratase; Provisional; Region: PRK14017 309801006480 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 309801006481 active site pocket [active] 309801006482 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 309801006483 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 309801006484 Walker A/P-loop; other site 309801006485 ATP binding site [chemical binding]; other site 309801006486 Q-loop/lid; other site 309801006487 ABC transporter signature motif; other site 309801006488 Walker B; other site 309801006489 D-loop; other site 309801006490 H-loop/switch region; other site 309801006491 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 309801006492 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 309801006493 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801006494 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801006495 Transcriptional regulator [Transcription]; Region: IclR; COG1414 309801006496 Bacterial transcriptional regulator; Region: IclR; pfam01614 309801006497 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 309801006498 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 309801006499 Proline dehydrogenase; Region: Pro_dh; cl03282 309801006500 cobalt transport protein CbiM; Provisional; Region: PRK07331 309801006501 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 309801006502 Cobalt transport protein; Region: CbiQ; cl00463 309801006503 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 309801006504 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 309801006505 Walker A/P-loop; other site 309801006506 ATP binding site [chemical binding]; other site 309801006507 Q-loop/lid; other site 309801006508 ABC transporter signature motif; other site 309801006509 Walker B; other site 309801006510 D-loop; other site 309801006511 H-loop/switch region; other site 309801006512 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 309801006513 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 309801006514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801006515 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 309801006516 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 309801006517 DNA binding residues [nucleotide binding] 309801006518 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 309801006519 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 309801006520 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 309801006521 protein binding site [polypeptide binding]; other site 309801006522 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 309801006523 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 309801006524 dimerization interface [polypeptide binding]; other site 309801006525 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 309801006526 dimer interface [polypeptide binding]; other site 309801006527 phosphorylation site [posttranslational modification] 309801006528 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 309801006529 ATP binding site [chemical binding]; other site 309801006530 Mg2+ binding site [ion binding]; other site 309801006531 G-X-G motif; other site 309801006532 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 309801006533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801006534 active site 309801006535 phosphorylation site [posttranslational modification] 309801006536 intermolecular recognition site; other site 309801006537 dimerization interface [polypeptide binding]; other site 309801006538 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 309801006539 DNA binding site [nucleotide binding] 309801006540 YceI-like domain; Region: YceI; cl01001 309801006541 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 309801006542 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801006543 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 309801006544 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 309801006545 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 309801006546 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 309801006547 DNA binding residues [nucleotide binding] 309801006548 Anti-sigma-K factor rskA; Region: RskA; cl15366 309801006549 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 309801006550 TadE-like protein; Region: TadE; pfam07811 309801006551 GYD domain; Region: GYD; cl01743 309801006552 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 309801006553 S-adenosylmethionine binding site [chemical binding]; other site 309801006554 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 309801006555 putative substrate translocation pore; other site 309801006556 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 309801006557 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 309801006558 quinone interaction residues [chemical binding]; other site 309801006559 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 309801006560 active site 309801006561 catalytic residues [active] 309801006562 FMN binding site [chemical binding]; other site 309801006563 substrate binding site [chemical binding]; other site 309801006564 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 309801006565 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 309801006566 motif II; other site 309801006567 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl12032 309801006568 hypothetical protein; Reviewed; Region: PRK09588 309801006569 Archease protein family (DUF101/UPF0211); Region: Archease; cl00606 309801006570 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 309801006571 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 309801006572 molybdopterin cofactor binding site; other site 309801006573 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 309801006574 putative molybdopterin cofactor binding site; other site 309801006575 tetrathionate reductase subunit B; Provisional; Region: PRK14993 309801006576 4Fe-4S binding domain; Region: Fer4; cl02805 309801006577 4Fe-4S binding domain; Region: Fer4; cl02805 309801006578 Polysulphide reductase, NrfD; Region: NrfD; cl01295 309801006579 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 309801006580 putative homotetramer interface [polypeptide binding]; other site 309801006581 putative homodimer interface [polypeptide binding]; other site 309801006582 putative allosteric switch controlling residues; other site 309801006583 putative metal binding site [ion binding]; other site 309801006584 putative homodimer-homodimer interface [polypeptide binding]; other site 309801006585 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 309801006586 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801006587 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 309801006588 TM-ABC transporter signature motif; other site 309801006589 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 309801006590 TM-ABC transporter signature motif; other site 309801006591 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 309801006592 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 309801006593 Walker A/P-loop; other site 309801006594 ATP binding site [chemical binding]; other site 309801006595 Q-loop/lid; other site 309801006596 ABC transporter signature motif; other site 309801006597 Walker B; other site 309801006598 D-loop; other site 309801006599 H-loop/switch region; other site 309801006600 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 309801006601 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 309801006602 Walker A/P-loop; other site 309801006603 ATP binding site [chemical binding]; other site 309801006604 Q-loop/lid; other site 309801006605 ABC transporter signature motif; other site 309801006606 Walker B; other site 309801006607 D-loop; other site 309801006608 H-loop/switch region; other site 309801006609 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 309801006610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006611 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 309801006612 active site 309801006613 putative catalytic site [active] 309801006614 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 309801006615 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 309801006616 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 309801006617 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 309801006618 Flagellar hook capping protein; Region: FlgD; cl04347 309801006619 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 309801006620 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 309801006621 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 309801006622 Peptidase family M23; Region: Peptidase_M23; pfam01551 309801006623 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 catalyze...; Region: LT_GEWL; cd00254 309801006624 N-acetyl-D-glucosamine binding site [chemical binding]; other site 309801006625 catalytic residue [active] 309801006626 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 309801006627 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 309801006628 Walker A motif/ATP binding site; other site 309801006629 Walker B motif; other site 309801006630 Flagellar assembly protein FliH; Region: FliH; pfam02108 309801006631 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 309801006632 FliG C-terminal domain; Region: FliG_C; pfam01706 309801006633 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 309801006634 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 309801006635 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 309801006636 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 309801006637 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 309801006638 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 309801006639 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 309801006640 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 309801006641 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 309801006642 metal binding site [ion binding]; metal-binding site 309801006643 dimer interface [polypeptide binding]; other site 309801006644 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 309801006645 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 309801006646 EamA-like transporter family; Region: EamA; cl01037 309801006647 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 309801006648 EamA-like transporter family; Region: EamA; cl01037 309801006649 Ubiquitin-like proteins; Region: UBQ; cl00155 309801006650 charged pocket; other site 309801006651 hydrophobic patch; other site 309801006652 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 309801006653 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 309801006654 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 309801006655 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 309801006656 homotrimer interaction site [polypeptide binding]; other site 309801006657 putative active site [active] 309801006658 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 309801006659 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 309801006660 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 309801006661 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 309801006662 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 309801006663 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 309801006664 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 309801006665 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 309801006666 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 309801006667 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 309801006668 MoxR-like ATPases [General function prediction only]; Region: COG0714 309801006669 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801006670 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 309801006671 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 309801006672 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 309801006673 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 309801006674 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 309801006675 catalytic residue [active] 309801006676 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801006677 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 309801006678 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 309801006679 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 309801006680 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 309801006681 NAD+ binding site [chemical binding]; other site 309801006682 substrate binding site [chemical binding]; other site 309801006683 Zn binding site [ion binding]; other site 309801006684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006685 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801006686 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 309801006687 Major Facilitator Superfamily; Region: MFS_1; pfam07690 309801006688 putative substrate translocation pore; other site 309801006689 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 309801006690 active site 309801006691 catalytic residues [active] 309801006692 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 309801006693 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 309801006694 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 309801006695 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 309801006696 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 309801006697 peptide binding site [polypeptide binding]; other site 309801006698 dipeptide transporter permease DppB; Provisional; Region: PRK10914 309801006699 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801006700 dimer interface [polypeptide binding]; other site 309801006701 conserved gate region; other site 309801006702 putative PBP binding loops; other site 309801006703 ABC-ATPase subunit interface; other site 309801006704 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 309801006705 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 309801006706 dimer interface [polypeptide binding]; other site 309801006707 conserved gate region; other site 309801006708 putative PBP binding loops; other site 309801006709 ABC-ATPase subunit interface; other site 309801006710 Uncharacterized conserved protein [Function unknown]; Region: COG3342 309801006711 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 309801006712 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 309801006713 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 309801006714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006715 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 309801006716 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 309801006717 dimer interface [polypeptide binding]; other site 309801006718 active site 309801006719 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 309801006720 dimer interface [polypeptide binding]; other site 309801006721 active site 309801006722 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 309801006723 active site 309801006724 dimer interface [polypeptide binding]; other site 309801006725 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 309801006726 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 309801006727 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 309801006728 putative active site [active] 309801006729 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 309801006730 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 309801006731 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 309801006732 putative active site [active] 309801006733 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 309801006734 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 309801006735 putative active site pocket [active] 309801006736 metal binding site [ion binding]; metal-binding site 309801006737 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 309801006738 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 309801006739 ATP binding site [chemical binding]; other site 309801006740 putative Mg++ binding site [ion binding]; other site 309801006741 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 309801006742 nucleotide binding region [chemical binding]; other site 309801006743 ATP-binding site [chemical binding]; other site 309801006744 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 309801006745 potential frameshift: common BLAST hit: gi|113476660|ref|YP_722721.1| AAA family ATPase 309801006746 Protein of unknown function (DUF499); Region: DUF499; cl15396 309801006747 Peptidase family M23; Region: Peptidase_M23; pfam01551 309801006748 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 309801006749 putative substrate translocation pore; other site 309801006750 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 309801006751 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 309801006752 Catalytic site; other site 309801006753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006754 NAD(P) binding site [chemical binding]; other site 309801006755 active site 309801006756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006757 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 309801006758 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 309801006759 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309801006760 Flavin Reductases; Region: FlaRed; cl00801 309801006761 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 309801006762 catalytic residues [active] 309801006763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006764 sarcosine oxidase, monomeric form; Region: soxA_mon; TIGR01377 309801006765 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; cl12011 309801006766 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 309801006767 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 309801006768 transmembrane helices; other site 309801006769 Sulfatase; Region: Sulfatase; cl10460 309801006770 Arginase family; Region: Arginase; cl00306 309801006771 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 309801006772 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801006773 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 309801006774 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 309801006775 inhibitor-cofactor binding pocket; inhibition site 309801006776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801006777 catalytic residue [active] 309801006778 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 309801006779 active site 309801006780 putative catalytic site [active] 309801006781 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 309801006782 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 309801006783 putative NAD(P) binding site [chemical binding]; other site 309801006784 catalytic Zn binding site [ion binding]; other site 309801006785 structural Zn binding site [ion binding]; other site 309801006786 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 309801006787 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 309801006788 P-loop; other site 309801006789 Magnesium ion binding site [ion binding]; other site 309801006790 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 309801006791 Magnesium ion binding site [ion binding]; other site 309801006792 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 309801006793 ParB-like nuclease domain; Region: ParBc; cl02129 309801006794 Predicted type IV restriction endonuclease [Defense mechanisms]; Region: COG2810 309801006795 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 309801006796 LamB/YcsF family; Region: LamB_YcsF; cl00664 309801006797 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 309801006798 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 309801006799 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 309801006800 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 309801006801 carboxyltransferase (CT) interaction site; other site 309801006802 biotinylation site [posttranslational modification]; other site 309801006803 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 309801006804 TM-ABC transporter signature motif; other site 309801006805 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 309801006806 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 309801006807 Walker A/P-loop; other site 309801006808 ATP binding site [chemical binding]; other site 309801006809 Q-loop/lid; other site 309801006810 ABC transporter signature motif; other site 309801006811 Walker B; other site 309801006812 D-loop; other site 309801006813 H-loop/switch region; other site 309801006814 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 309801006815 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 309801006816 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801006817 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 309801006818 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 309801006819 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 309801006820 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 309801006821 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 309801006822 catalytic loop [active] 309801006823 iron binding site [ion binding]; other site 309801006824 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 309801006825 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 309801006826 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 309801006827 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 309801006828 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 309801006829 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 309801006830 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 309801006831 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 309801006832 hypothetical protein; Provisional; Region: PRK08296 309801006833 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 309801006834 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 309801006835 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 309801006836 active site 309801006837 catalytic site [active] 309801006838 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 309801006839 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 309801006840 oligomerization interface [polypeptide binding]; other site 309801006841 active site 309801006842 metal binding site [ion binding]; metal-binding site 309801006843 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 309801006844 Pantoate-beta-alanine ligase; Region: PanC; cd00560 309801006845 active site 309801006846 ATP-binding site [chemical binding]; other site 309801006847 pantoate-binding site; other site 309801006848 HXXH motif; other site 309801006849 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 309801006850 Catalytic domain of Protein Kinases; Region: PKc; cd00180 309801006851 active site 309801006852 ATP binding site [chemical binding]; other site 309801006853 substrate binding site [chemical binding]; other site 309801006854 activation loop (A-loop); other site 309801006855 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 309801006856 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 309801006857 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801006858 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801006859 hypothetical protein; Provisional; Region: PRK06154 309801006860 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801006861 PYR/PP interface [polypeptide binding]; other site 309801006862 dimer interface [polypeptide binding]; other site 309801006863 TPP binding site [chemical binding]; other site 309801006864 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801006865 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 309801006866 TPP-binding site; other site 309801006867 dimer interface [polypeptide binding]; other site 309801006868 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 309801006869 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 309801006870 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 309801006871 Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; Region: PBP1_aromatic_compounds_like; cd06332 309801006872 putative ligand binding site [chemical binding]; other site 309801006873 hypothetical protein; Provisional; Region: PHA02764 309801006874 Amino acid permease; Region: AA_permease; cl00524 309801006875 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 309801006876 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 309801006877 active site 309801006878 metal binding site [ion binding]; metal-binding site 309801006879 First nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R1; cd07578 309801006880 Predicted amidohydrolase [General function prediction only]; Region: COG0388 309801006881 putative active site [active] 309801006882 catalytic triad [active] 309801006883 putative dimer interface [polypeptide binding]; other site 309801006884 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R2; cd07579 309801006885 putative active site [active] 309801006886 catalytic triad [active] 309801006887 putative dimer interface [polypeptide binding]; other site 309801006888 Low molecular weight phosphatase family; Region: LMWPc; cd00115 309801006889 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 309801006890 active site 309801006891 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 309801006892 active site 309801006893 NTP binding site [chemical binding]; other site 309801006894 metal binding triad [ion binding]; metal-binding site 309801006895 antibiotic binding site [chemical binding]; other site 309801006896 HEPN domain; Region: HEPN; cl00824 309801006897 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 309801006898 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 309801006899 dimer interface [polypeptide binding]; other site 309801006900 substrate binding site [chemical binding]; other site 309801006901 phosphate binding site [ion binding]; other site 309801006902 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801006903 EamA-like transporter family; Region: EamA; cl01037 309801006904 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 309801006905 putative FMN binding site [chemical binding]; other site 309801006906 Staphylococcal nuclease homologues; Region: SNc; smart00318 309801006907 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 309801006908 Catalytic site; other site 309801006909 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 309801006910 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 309801006911 PYR/PP interface [polypeptide binding]; other site 309801006912 dimer interface [polypeptide binding]; other site 309801006913 TPP binding site [chemical binding]; other site 309801006914 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 309801006915 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 309801006916 TPP-binding site [chemical binding]; other site 309801006917 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]; Region: COG2401 309801006918 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 309801006919 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801006920 Walker A/P-loop; other site 309801006921 ATP binding site [chemical binding]; other site 309801006922 ABC transporter signature motif; other site 309801006923 Walker B; other site 309801006924 D-loop; other site 309801006925 H-loop/switch region; other site 309801006926 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 309801006927 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 309801006928 MiaB-like tRNA modifying enzyme, archaeal-type; Region: MiaB-like-B; TIGR01578 309801006929 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 309801006930 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 309801006931 FeS/SAM binding site; other site 309801006932 aspartate aminotransferase; Provisional; Region: PRK07568 309801006933 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 309801006934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801006935 homodimer interface [polypeptide binding]; other site 309801006936 catalytic residue [active] 309801006937 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 309801006938 active site 309801006939 catalytic triad [active] 309801006940 oxyanion hole [active] 309801006941 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 309801006942 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 309801006943 nucleotide binding site/active site [active] 309801006944 HIT family signature motif; other site 309801006945 catalytic residue [active] 309801006946 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 309801006947 nudix motif; other site 309801006948 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 309801006949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006950 Bacterial sugar transferase; Region: Bac_transf; cl00939 309801006951 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 309801006952 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 309801006953 putative ADP-binding pocket [chemical binding]; other site 309801006954 Chain length determinant protein; Region: Wzz; cl01623 309801006955 Chain length determinant protein; Region: Wzz; cl01623 309801006956 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 309801006957 enoyl-CoA hydratase; Validated; Region: PRK08139 309801006958 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 309801006959 substrate binding site [chemical binding]; other site 309801006960 oxyanion hole (OAH) forming residues; other site 309801006961 trimer interface [polypeptide binding]; other site 309801006962 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 309801006963 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 309801006964 homodimer interface [polypeptide binding]; other site 309801006965 substrate-cofactor binding pocket; other site 309801006966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801006967 catalytic residue [active] 309801006968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006969 acyl-CoA synthetase; Validated; Region: PRK08162 309801006970 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 309801006971 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 309801006972 metabolite-proton symporter; Region: 2A0106; TIGR00883 309801006973 putative substrate translocation pore; other site 309801006974 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 309801006975 dimerization interface [polypeptide binding]; other site 309801006976 putative DNA binding site [nucleotide binding]; other site 309801006977 putative Zn2+ binding site [ion binding]; other site 309801006978 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 309801006979 Domain of unknown function DUF302; Region: DUF302; cl01364 309801006980 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 309801006981 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 309801006982 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 309801006983 active site residue [active] 309801006984 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 309801006985 active site residue [active] 309801006986 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 309801006987 active site residue [active] 309801006988 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 309801006989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801006990 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 309801006991 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 309801006992 [2Fe-2S] cluster binding site [ion binding]; other site 309801006993 mycofactocin system glycosyltransferase; Region: actino_glycTran; TIGR03965 309801006994 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 309801006995 active site 309801006996 radical SAM peptide maturase, mycofactocin system; Region: rSAM_MSMEG_1423; TIGR03962 309801006997 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 309801006998 FeS/SAM binding site; other site 309801006999 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 309801007000 mycofactocin system RPExFGAL proteinn; Region: Ac_RPExFGAL; TIGR03967 309801007001 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 309801007002 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 309801007003 NAD binding site [chemical binding]; other site 309801007004 catalytic Zn binding site [ion binding]; other site 309801007005 substrate binding site [chemical binding]; other site 309801007006 structural Zn binding site [ion binding]; other site 309801007007 heme/flavin dehydrogenase, mycofactocin system; Region: actino_HemFlav; TIGR03966 309801007008 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; cl09108 309801007009 phosphate binding site [ion binding]; other site 309801007010 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 309801007011 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 309801007012 NAD binding site [chemical binding]; other site 309801007013 catalytic Zn binding site [ion binding]; other site 309801007014 substrate binding site [chemical binding]; other site 309801007015 structural Zn binding site [ion binding]; other site 309801007016 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 309801007017 catalytic motif [active] 309801007018 Zn binding site [ion binding]; other site 309801007019 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 309801007020 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 309801007021 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 309801007022 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 309801007023 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 309801007024 trimer interface [polypeptide binding]; other site 309801007025 active site 309801007026 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 309801007027 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 309801007028 substrate binding site [chemical binding]; other site 309801007029 ATP binding site [chemical binding]; other site 309801007030 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 309801007031 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 309801007032 motif II; other site 309801007033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801007034 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 309801007035 Creatinine amidohydrolase; Region: Creatininase; cl00618 309801007036 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 309801007037 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 309801007038 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 309801007039 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 309801007040 Probable Catalytic site; other site 309801007041 metal-binding site 309801007042 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 309801007043 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 309801007044 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 309801007045 ANP binding site [chemical binding]; other site 309801007046 Substrate Binding Site II [chemical binding]; other site 309801007047 Substrate Binding Site I [chemical binding]; other site 309801007048 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 309801007049 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 309801007050 minor groove reading motif; other site 309801007051 helix-hairpin-helix signature motif; other site 309801007052 substrate binding pocket [chemical binding]; other site 309801007053 active site 309801007054 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 309801007055 IPP transferase; Region: IPPT; cl00403 309801007056 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 309801007057 YceG-like family; Region: YceG; pfam02618 309801007058 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 309801007059 dimerization interface [polypeptide binding]; other site 309801007060 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 309801007061 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 309801007062 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 309801007063 shikimate binding site; other site 309801007064 NAD(P) binding site [chemical binding]; other site 309801007065 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 309801007066 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 309801007067 SpoVR like protein; Region: SpoVR; pfam04293 309801007068 Uncharacterized conserved protein [Function unknown]; Region: COG2718 309801007069 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 309801007070 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 309801007071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801007072 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 309801007073 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 309801007074 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 309801007075 oligomer interface [polypeptide binding]; other site 309801007076 active site 309801007077 metal binding site [ion binding]; metal-binding site 309801007078 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 309801007079 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 309801007080 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 309801007081 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 309801007082 DNA binding site [nucleotide binding] 309801007083 Int/Topo IB signature motif; other site 309801007084 active site 309801007085 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 309801007086 active site 309801007087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 309801007088 active site 309801007089 phosphorylation site [posttranslational modification] 309801007090 intermolecular recognition site; other site 309801007091 dimerization interface [polypeptide binding]; other site 309801007092 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 309801007093 metal-binding site [ion binding] 309801007094 Alpha/beta hydrolase of unknown function (DUF1100); Region: DUF1100; pfam06500 309801007095 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 309801007096 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 309801007097 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 309801007098 Walker A motif; other site 309801007099 ATP binding site [chemical binding]; other site 309801007100 Walker B motif; other site 309801007101 Peptidase family M41; Region: Peptidase_M41; pfam01434 309801007102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801007103 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 309801007104 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 309801007105 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 309801007106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 309801007107 homodimer interface [polypeptide binding]; other site 309801007108 catalytic residue [active] 309801007109 Bacterial protein of unknown function (DUF894); Region: DUF894; pfam05977 309801007110 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 309801007111 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 309801007112 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit; Region: F420_cofH; TIGR03551 309801007113 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 309801007114 FeS/SAM binding site; other site 309801007115 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit; Region: F420_cofG; TIGR03550 309801007116 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 309801007117 FeS/SAM binding site; other site 309801007118 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 309801007119 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA; cl01007 309801007120 SxDxEG motif; other site 309801007121 active site 309801007122 metal binding site [ion binding]; metal-binding site 309801007123 homopentamer interface [polypeptide binding]; other site 309801007124 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 309801007125 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 309801007126 oligoendopeptidase F; Region: pepF; TIGR00181 309801007127 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 309801007128 active site 309801007129 Zn binding site [ion binding]; other site 309801007130 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 309801007131 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 309801007132 S-adenosylmethionine binding site [chemical binding]; other site 309801007133 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 309801007134 substrate binding site [chemical binding]; other site 309801007135 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 309801007136 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 309801007137 EamA-like transporter family; Region: EamA; cl01037 309801007138 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 309801007139 EamA-like transporter family; Region: EamA; cl01037 309801007140 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 309801007141 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 309801007142 NADP-binding site; other site 309801007143 homotetramer interface [polypeptide binding]; other site 309801007144 substrate binding site [chemical binding]; other site 309801007145 homodimer interface [polypeptide binding]; other site 309801007146 active site 309801007147 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 309801007148 DNA-binding site [nucleotide binding]; DNA binding site 309801007149 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 309801007150 FCD domain; Region: FCD; cl11656 309801007151 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 309801007152 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; cl09108 309801007153 catalytic residue [active] 309801007154 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 309801007155 dimerization interface [polypeptide binding]; other site 309801007156 putative path to active site cavity [active] 309801007157 diiron center [ion binding]; other site 309801007158 Toluene-4-monooxygenase system protein B (TmoB); Region: TmoB; pfam06234 309801007159 Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent...; Region: Rieske_T4moC; cd03474 309801007160 [2Fe-2S] cluster binding site [ion binding]; other site 309801007161 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 309801007162 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 309801007163 dimerization interface [polypeptide binding]; other site 309801007164 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 309801007165 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 309801007166 catalytic loop [active] 309801007167 iron binding site [ion binding]; other site 309801007168 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 309801007169 FAD binding pocket [chemical binding]; other site 309801007170 conserved FAD binding motif [chemical binding]; other site 309801007171 phosphate binding motif [ion binding]; other site 309801007172 beta-alpha-beta structure motif; other site 309801007173 NAD binding pocket [chemical binding]; other site 309801007174 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 309801007175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 309801007176 NAD(P) binding site [chemical binding]; other site 309801007177 active site 309801007178 Epoxide hydrolase N terminus; Region: EHN; pfam06441 309801007179 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 309801007180 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 309801007181 active site 309801007182 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 309801007183 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 309801007184 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 309801007185 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 309801007186 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 309801007187 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 309801007188 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 309801007189 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 309801007190 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 309801007191 putative NAD(P) binding site [chemical binding]; other site 309801007192 putative active site [active] 309801007193 Cupin domain; Region: Cupin_2; cl09118 309801007194 N-terminal domain of type I, class II extradiol dioxygenases; non-catalytic domain; Region: ED_TypeI_classII_N; cd07240 309801007195 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 309801007196 oligomer interface [polypeptide binding]; other site 309801007197 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 309801007198 active site 309801007199 metal binding site [ion binding]; metal-binding site 309801007200 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 309801007201 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 309801007202 tetramer interface [polypeptide binding]; other site 309801007203 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 309801007204 tetramer interface [polypeptide binding]; other site 309801007205 active site 309801007206 metal binding site [ion binding]; metal-binding site 309801007207 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 309801007208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 309801007209 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210