-- dump date 20140619_060933 -- class Genbank::misc_feature -- table misc_feature_note -- id note 644282000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 644282000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 644282000003 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 644282000004 Walker A motif; other site 644282000005 ATP binding site [chemical binding]; other site 644282000006 Walker B motif; other site 644282000007 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 644282000008 DnaA box-binding interface [nucleotide binding]; other site 644282000009 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 644282000010 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 644282000011 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644282000012 acyl-CoA synthetase; Validated; Region: PRK08316 644282000013 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282000014 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 644282000015 acyl-activating enzyme (AAE) consensus motif; other site 644282000016 putative AMP binding site [chemical binding]; other site 644282000017 putative active site [active] 644282000018 putative CoA binding site [chemical binding]; other site 644282000019 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 644282000020 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 644282000021 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 644282000022 dimerization interface [polypeptide binding]; other site 644282000023 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 644282000024 dimer interface [polypeptide binding]; other site 644282000025 phosphorylation site [posttranslational modification] 644282000026 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 644282000027 ATP binding site [chemical binding]; other site 644282000028 Mg2+ binding site [ion binding]; other site 644282000029 G-X-G motif; other site 644282000030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000031 active site 644282000032 phosphorylation site [posttranslational modification] 644282000033 intermolecular recognition site; other site 644282000034 dimerization interface [polypeptide binding]; other site 644282000035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000036 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000037 active site 644282000038 phosphorylation site [posttranslational modification] 644282000039 intermolecular recognition site; other site 644282000040 dimerization interface [polypeptide binding]; other site 644282000041 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 644282000042 Proline dehydrogenase; Region: Pro_dh; cl03282 644282000043 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 644282000044 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 644282000045 CPxP motif; other site 644282000046 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 644282000047 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 644282000048 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 644282000049 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282000050 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 644282000051 acyl-activating enzyme (AAE) consensus motif; other site 644282000052 putative AMP binding site [chemical binding]; other site 644282000053 putative active site [active] 644282000054 putative CoA binding site [chemical binding]; other site 644282000055 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 644282000056 Ferritin-like domain; Region: Ferritin; pfam00210 644282000057 diiron binding motif [ion binding]; other site 644282000058 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 644282000059 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 644282000060 putative substrate translocation pore; other site 644282000061 PAS domain; Region: PAS_8; pfam13188 644282000062 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282000063 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 644282000064 putative active site [active] 644282000065 heme pocket [chemical binding]; other site 644282000066 GAF domain; Region: GAF_2; pfam13185 644282000067 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 644282000068 dimer interface [polypeptide binding]; other site 644282000069 phosphorylation site [posttranslational modification] 644282000070 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 644282000071 ATP binding site [chemical binding]; other site 644282000072 Mg2+ binding site [ion binding]; other site 644282000073 G-X-G motif; other site 644282000074 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282000075 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000076 active site 644282000077 phosphorylation site [posttranslational modification] 644282000078 intermolecular recognition site; other site 644282000079 dimerization interface [polypeptide binding]; other site 644282000080 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282000081 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 644282000082 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282000083 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282000084 putative cation:proton antiport protein; Provisional; Region: PRK10669 644282000085 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 644282000086 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282000087 TrkA-N domain; Region: TrkA_N; pfam02254 644282000088 TrkA-C domain; Region: TrkA_C; pfam02080 644282000089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000090 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282000091 NAD(P) binding site [chemical binding]; other site 644282000092 active site 644282000093 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 644282000094 L-aspartate oxidase; Provisional; Region: PRK06175 644282000095 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 644282000096 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 644282000097 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 644282000098 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 644282000099 dimerization interface [polypeptide binding]; other site 644282000100 active site 644282000101 quinolinate synthetase; Provisional; Region: PRK09375 644282000102 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 644282000103 HTH domain; Region: HTH_11; pfam08279 644282000104 3H domain; Region: 3H; pfam02829 644282000105 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 644282000106 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282000107 putative active site [active] 644282000108 heme pocket [chemical binding]; other site 644282000109 PAS domain; Region: PAS_8; pfam13188 644282000110 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282000111 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282000112 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 644282000113 putative active site [active] 644282000114 heme pocket [chemical binding]; other site 644282000115 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 644282000116 dimer interface [polypeptide binding]; other site 644282000117 phosphorylation site [posttranslational modification] 644282000118 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 644282000119 ATP binding site [chemical binding]; other site 644282000120 Mg2+ binding site [ion binding]; other site 644282000121 G-X-G motif; other site 644282000122 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282000123 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282000124 active site 644282000125 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 644282000126 substrate binding site [chemical binding]; other site 644282000127 oxyanion hole (OAH) forming residues; other site 644282000128 trimer interface [polypeptide binding]; other site 644282000129 Transcriptional regulators [Transcription]; Region: FadR; COG2186 644282000130 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644282000131 DNA-binding site [nucleotide binding]; DNA binding site 644282000132 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 644282000133 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 644282000134 dimerization interface [polypeptide binding]; other site 644282000135 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 644282000136 dimer interface [polypeptide binding]; other site 644282000137 phosphorylation site [posttranslational modification] 644282000138 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 644282000139 ATP binding site [chemical binding]; other site 644282000140 G-X-G motif; other site 644282000141 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282000142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000143 active site 644282000144 phosphorylation site [posttranslational modification] 644282000145 intermolecular recognition site; other site 644282000146 dimerization interface [polypeptide binding]; other site 644282000147 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 644282000148 Walker A motif; other site 644282000149 ATP binding site [chemical binding]; other site 644282000150 Walker B motif; other site 644282000151 arginine finger; other site 644282000152 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282000153 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 644282000154 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 644282000155 Sulfate transporter family; Region: Sulfate_transp; pfam00916 644282000156 Sulfate transporter family; Region: Sulfate_transp; pfam00916 644282000157 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 644282000158 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 644282000159 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282000160 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000161 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000162 active site 644282000163 phosphorylation site [posttranslational modification] 644282000164 intermolecular recognition site; other site 644282000165 dimerization interface [polypeptide binding]; other site 644282000166 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282000167 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 644282000168 dimer interface [polypeptide binding]; other site 644282000169 phosphorylation site [posttranslational modification] 644282000170 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 644282000171 ATP binding site [chemical binding]; other site 644282000172 Mg2+ binding site [ion binding]; other site 644282000173 G-X-G motif; other site 644282000174 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000176 active site 644282000177 phosphorylation site [posttranslational modification] 644282000178 intermolecular recognition site; other site 644282000179 dimerization interface [polypeptide binding]; other site 644282000180 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000182 active site 644282000183 phosphorylation site [posttranslational modification] 644282000184 intermolecular recognition site; other site 644282000185 dimerization interface [polypeptide binding]; other site 644282000186 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 644282000187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000188 active site 644282000189 phosphorylation site [posttranslational modification] 644282000190 intermolecular recognition site; other site 644282000191 dimerization interface [polypeptide binding]; other site 644282000192 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282000193 Zn2+ binding site [ion binding]; other site 644282000194 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000196 active site 644282000197 phosphorylation site [posttranslational modification] 644282000198 intermolecular recognition site; other site 644282000199 dimerization interface [polypeptide binding]; other site 644282000200 HDOD domain; Region: HDOD; pfam08668 644282000201 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282000202 Zn2+ binding site [ion binding]; other site 644282000203 Mg2+ binding site [ion binding]; other site 644282000204 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 644282000205 PAS domain; Region: PAS_9; pfam13426 644282000206 putative active site [active] 644282000207 heme pocket [chemical binding]; other site 644282000208 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282000209 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 644282000210 putative active site [active] 644282000211 heme pocket [chemical binding]; other site 644282000212 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 644282000213 ATP binding site [chemical binding]; other site 644282000214 Mg2+ binding site [ion binding]; other site 644282000215 G-X-G motif; other site 644282000216 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282000217 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000218 active site 644282000219 phosphorylation site [posttranslational modification] 644282000220 intermolecular recognition site; other site 644282000221 PAS domain; Region: PAS_9; pfam13426 644282000222 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 644282000223 putative active site [active] 644282000224 heme pocket [chemical binding]; other site 644282000225 PAS domain S-box; Region: sensory_box; TIGR00229 644282000226 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 644282000227 putative active site [active] 644282000228 heme pocket [chemical binding]; other site 644282000229 PAS domain; Region: PAS; smart00091 644282000230 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 644282000231 RNase_H superfamily; Region: RNase_H_2; pfam13482 644282000232 active site 644282000233 substrate binding site [chemical binding]; other site 644282000234 catalytic site [active] 644282000235 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 644282000236 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 644282000237 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 644282000238 S-adenosylmethionine binding site [chemical binding]; other site 644282000239 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 644282000240 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 644282000241 putative active site [active] 644282000242 Mn binding site [ion binding]; other site 644282000243 PAS domain S-box; Region: sensory_box; TIGR00229 644282000244 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 644282000245 putative active site [active] 644282000246 heme pocket [chemical binding]; other site 644282000247 DGC domain; Region: DGC; pfam08859 644282000248 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 644282000249 Ligand Binding Site [chemical binding]; other site 644282000250 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 644282000251 Ligand Binding Site [chemical binding]; other site 644282000252 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000253 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000254 active site 644282000255 phosphorylation site [posttranslational modification] 644282000256 intermolecular recognition site; other site 644282000257 dimerization interface [polypeptide binding]; other site 644282000258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000259 active site 644282000260 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282000261 phosphorylation site [posttranslational modification] 644282000262 intermolecular recognition site; other site 644282000263 dimerization interface [polypeptide binding]; other site 644282000264 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 644282000265 dimer interface [polypeptide binding]; other site 644282000266 phosphorylation site [posttranslational modification] 644282000267 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 644282000268 ATP binding site [chemical binding]; other site 644282000269 Mg2+ binding site [ion binding]; other site 644282000270 G-X-G motif; other site 644282000271 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644282000272 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 644282000273 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 644282000274 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000275 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000276 active site 644282000277 phosphorylation site [posttranslational modification] 644282000278 intermolecular recognition site; other site 644282000279 dimerization interface [polypeptide binding]; other site 644282000280 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000282 active site 644282000283 phosphorylation site [posttranslational modification] 644282000284 intermolecular recognition site; other site 644282000285 dimerization interface [polypeptide binding]; other site 644282000286 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 644282000287 dimer interface [polypeptide binding]; other site 644282000288 phosphorylation site [posttranslational modification] 644282000289 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 644282000290 ATP binding site [chemical binding]; other site 644282000291 G-X-G motif; other site 644282000292 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282000293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 644282000294 active site 644282000295 phosphorylation site [posttranslational modification] 644282000296 intermolecular recognition site; other site 644282000297 dimerization interface [polypeptide binding]; other site 644282000298 PAS domain S-box; Region: sensory_box; TIGR00229 644282000299 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 644282000300 putative active site [active] 644282000301 heme pocket [chemical binding]; other site 644282000302 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 644282000303 Histidine kinase; Region: HisKA_3; pfam07730 644282000304 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 644282000305 ATP binding site [chemical binding]; other site 644282000306 Mg2+ binding site [ion binding]; other site 644282000307 G-X-G motif; other site 644282000308 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644282000309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000310 active site 644282000311 phosphorylation site [posttranslational modification] 644282000312 intermolecular recognition site; other site 644282000313 dimerization interface [polypeptide binding]; other site 644282000314 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 644282000315 DNA binding residues [nucleotide binding] 644282000316 dimerization interface [polypeptide binding]; other site 644282000317 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 644282000318 GAF domain; Region: GAF_2; pfam13185 644282000319 GAF domain; Region: GAF_3; pfam13492 644282000320 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 644282000321 dimer interface [polypeptide binding]; other site 644282000322 phosphorylation site [posttranslational modification] 644282000323 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 644282000324 ATP binding site [chemical binding]; other site 644282000325 Mg2+ binding site [ion binding]; other site 644282000326 G-X-G motif; other site 644282000327 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 644282000328 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644282000329 catalytic residues [active] 644282000330 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282000331 TPR repeat; Region: TPR_11; pfam13414 644282000332 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 644282000333 TPR motif; other site 644282000334 binding surface 644282000335 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282000336 TPR motif; other site 644282000337 binding surface 644282000338 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 644282000339 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 644282000340 iron binding site [ion binding]; other site 644282000341 Rubrerythrin [Energy production and conversion]; Region: COG1592 644282000342 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 644282000343 binuclear metal center [ion binding]; other site 644282000344 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 644282000345 iron binding site [ion binding]; other site 644282000346 PemK-like protein; Region: PemK; cl00995 644282000347 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 644282000348 Methylamine utilisation protein MauE; Region: MauE; pfam07291 644282000349 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 644282000350 active site residue [active] 644282000351 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 644282000352 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282000353 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 644282000354 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282000355 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 644282000356 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 644282000357 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 644282000358 Cache domain; Region: Cache_1; pfam02743 644282000359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282000360 dimer interface [polypeptide binding]; other site 644282000361 putative CheW interface [polypeptide binding]; other site 644282000362 thioredoxin 2; Provisional; Region: PRK10996 644282000363 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 644282000364 catalytic residues [active] 644282000365 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 644282000366 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282000367 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 644282000368 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 644282000369 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282000370 Coenzyme A binding pocket [chemical binding]; other site 644282000371 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 644282000372 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 644282000373 substrate binding site [chemical binding]; other site 644282000374 oxyanion hole (OAH) forming residues; other site 644282000375 trimer interface [polypeptide binding]; other site 644282000376 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644282000377 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282000378 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282000379 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282000380 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282000381 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 644282000382 acetyl-CoA acetyltransferase; Provisional; Region: PRK06445 644282000383 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 644282000384 dimer interface [polypeptide binding]; other site 644282000385 active site 644282000386 Cache domain; Region: Cache_2; pfam08269 644282000387 PAS domain S-box; Region: sensory_box; TIGR00229 644282000388 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 644282000389 putative active site [active] 644282000390 heme pocket [chemical binding]; other site 644282000391 PAS domain S-box; Region: sensory_box; TIGR00229 644282000392 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 644282000393 putative active site [active] 644282000394 heme pocket [chemical binding]; other site 644282000395 PAS domain S-box; Region: sensory_box; TIGR00229 644282000396 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 644282000397 putative active site [active] 644282000398 heme pocket [chemical binding]; other site 644282000399 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282000400 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 644282000401 dimer interface [polypeptide binding]; other site 644282000402 phosphorylation site [posttranslational modification] 644282000403 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 644282000404 ATP binding site [chemical binding]; other site 644282000405 Mg2+ binding site [ion binding]; other site 644282000406 G-X-G motif; other site 644282000407 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000409 active site 644282000410 phosphorylation site [posttranslational modification] 644282000411 intermolecular recognition site; other site 644282000412 dimerization interface [polypeptide binding]; other site 644282000413 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 644282000414 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 644282000415 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 644282000416 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 644282000417 aspartate aminotransferase; Provisional; Region: PRK05764 644282000418 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 644282000419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282000420 homodimer interface [polypeptide binding]; other site 644282000421 catalytic residue [active] 644282000422 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 644282000423 G1 box; other site 644282000424 GTP/Mg2+ binding site [chemical binding]; other site 644282000425 Switch I region; other site 644282000426 G2 box; other site 644282000427 G3 box; other site 644282000428 Switch II region; other site 644282000429 G4 box; other site 644282000430 G5 box; other site 644282000431 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 644282000432 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 644282000433 catalytic residues [active] 644282000434 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644282000435 muropeptide transporter; Validated; Region: ampG; cl17669 644282000436 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 644282000437 S-adenosylmethionine binding site [chemical binding]; other site 644282000438 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282000439 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282000440 N-terminal plug; other site 644282000441 ligand-binding site [chemical binding]; other site 644282000442 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 644282000443 putative ligand binding pocket/active site [active] 644282000444 putative metal binding site [ion binding]; other site 644282000445 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 644282000446 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 644282000447 HIGH motif; other site 644282000448 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 644282000449 active site 644282000450 KMSKS motif; other site 644282000451 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282000452 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 644282000453 TPR motif; other site 644282000454 binding surface 644282000455 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282000456 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 644282000457 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282000458 Coenzyme A binding pocket [chemical binding]; other site 644282000459 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 644282000460 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 644282000461 Integrase core domain; Region: rve; pfam00665 644282000462 Integrase core domain; Region: rve_3; cl15866 644282000463 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644282000464 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 644282000465 non-specific DNA binding site [nucleotide binding]; other site 644282000466 salt bridge; other site 644282000467 sequence-specific DNA binding site [nucleotide binding]; other site 644282000468 Predicted transcriptional regulator [Transcription]; Region: COG2932 644282000469 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 644282000470 Catalytic site [active] 644282000471 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 644282000472 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 644282000473 active site 644282000474 Int/Topo IB signature motif; other site 644282000475 DNA binding site [nucleotide binding] 644282000476 Helix-turn-helix domain; Region: HTH_17; pfam12728 644282000477 Phosphoglycerate kinase; Region: PGK; pfam00162 644282000478 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; cl00198 644282000479 substrate binding site [chemical binding]; other site 644282000480 ADP binding site [chemical binding]; other site 644282000481 catalytic site [active] 644282000482 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 644282000483 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 644282000484 classical (c) SDRs; Region: SDR_c; cd05233 644282000485 NAD(P) binding site [chemical binding]; other site 644282000486 active site 644282000487 phosphoglucomutase; Validated; Region: PRK07564 644282000488 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 644282000489 active site 644282000490 substrate binding site [chemical binding]; other site 644282000491 metal binding site [ion binding]; metal-binding site 644282000492 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 644282000493 Na2 binding site [ion binding]; other site 644282000494 putative substrate binding site 1 [chemical binding]; other site 644282000495 Na binding site 1 [ion binding]; other site 644282000496 putative substrate binding site 2 [chemical binding]; other site 644282000497 Flagellar protein YcgR; Region: YcgR_2; pfam12945 644282000498 PilZ domain; Region: PilZ; pfam07238 644282000499 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 644282000500 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282000501 N-terminal plug; other site 644282000502 ligand-binding site [chemical binding]; other site 644282000503 Penicillin amidase; Region: Penicil_amidase; pfam01804 644282000504 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 644282000505 active site 644282000506 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 644282000507 enoyl-CoA hydratase; Provisional; Region: PRK06210 644282000508 substrate binding site [chemical binding]; other site 644282000509 oxyanion hole (OAH) forming residues; other site 644282000510 trimer interface [polypeptide binding]; other site 644282000511 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 644282000512 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282000513 putative active site [active] 644282000514 heme pocket [chemical binding]; other site 644282000515 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 644282000516 putative active site [active] 644282000517 heme pocket [chemical binding]; other site 644282000518 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282000519 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 644282000520 putative active site [active] 644282000521 heme pocket [chemical binding]; other site 644282000522 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 644282000523 dimer interface [polypeptide binding]; other site 644282000524 phosphorylation site [posttranslational modification] 644282000525 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 644282000526 ATP binding site [chemical binding]; other site 644282000527 Mg2+ binding site [ion binding]; other site 644282000528 G-X-G motif; other site 644282000529 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282000530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000531 active site 644282000532 phosphorylation site [posttranslational modification] 644282000533 intermolecular recognition site; other site 644282000534 dimerization interface [polypeptide binding]; other site 644282000535 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644282000536 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 644282000537 putative acyl-acceptor binding pocket; other site 644282000538 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282000539 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 644282000540 putative active site [active] 644282000541 heme pocket [chemical binding]; other site 644282000542 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 644282000543 dimer interface [polypeptide binding]; other site 644282000544 phosphorylation site [posttranslational modification] 644282000545 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 644282000546 ATP binding site [chemical binding]; other site 644282000547 Mg2+ binding site [ion binding]; other site 644282000548 G-X-G motif; other site 644282000549 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000550 active site 644282000551 phosphorylation site [posttranslational modification] 644282000552 intermolecular recognition site; other site 644282000553 dimerization interface [polypeptide binding]; other site 644282000554 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 644282000555 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 644282000556 hexamer interface [polypeptide binding]; other site 644282000557 ligand binding site [chemical binding]; other site 644282000558 putative active site [active] 644282000559 NAD(P) binding site [chemical binding]; other site 644282000560 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 644282000561 Ligand Binding Site [chemical binding]; other site 644282000562 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 644282000563 putative DNA binding site [nucleotide binding]; other site 644282000564 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282000565 putative Zn2+ binding site [ion binding]; other site 644282000566 Cache domain; Region: Cache_2; cl07034 644282000567 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 644282000568 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 644282000569 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 644282000570 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 644282000571 RNA binding site [nucleotide binding]; other site 644282000572 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282000573 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 644282000574 acyl-activating enzyme (AAE) consensus motif; other site 644282000575 putative AMP binding site [chemical binding]; other site 644282000576 putative active site [active] 644282000577 putative CoA binding site [chemical binding]; other site 644282000578 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 644282000579 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644282000580 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282000581 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282000582 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 644282000583 active site residue [active] 644282000584 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282000585 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 644282000586 Flagellin N-methylase; Region: FliB; pfam03692 644282000587 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 644282000588 Flavoprotein; Region: Flavoprotein; pfam02441 644282000589 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; pfam01862 644282000590 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282000591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000592 NAD(P) binding site [chemical binding]; other site 644282000593 active site 644282000594 D-cysteine desulfhydrase; Validated; Region: PRK03910 644282000595 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 644282000596 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282000597 catalytic residue [active] 644282000598 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644282000599 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282000600 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282000601 acyl-activating enzyme (AAE) consensus motif; other site 644282000602 active site 644282000603 AMP binding site [chemical binding]; other site 644282000604 CoA binding site [chemical binding]; other site 644282000605 hybrid cluster protein; Provisional; Region: PRK05290 644282000606 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 644282000607 ACS interaction site; other site 644282000608 CODH interaction site; other site 644282000609 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 644282000610 hybrid metal cluster; other site 644282000611 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 644282000612 CoenzymeA binding site [chemical binding]; other site 644282000613 subunit interaction site [polypeptide binding]; other site 644282000614 PHB binding site; other site 644282000615 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 644282000616 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282000617 putative active site [active] 644282000618 putative metal binding site [ion binding]; other site 644282000619 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 644282000620 anti sigma factor interaction site; other site 644282000621 regulatory phosphorylation site [posttranslational modification]; other site 644282000622 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282000623 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 644282000624 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 644282000625 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 644282000626 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 644282000627 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 644282000628 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 644282000629 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 644282000630 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 644282000631 MgtC family; Region: MgtC; pfam02308 644282000632 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 644282000633 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 644282000634 active site 644282000635 NTP binding site [chemical binding]; other site 644282000636 metal binding triad [ion binding]; metal-binding site 644282000637 DRTGG domain; Region: DRTGG; pfam07085 644282000638 Repair protein; Region: Repair_PSII; pfam04536 644282000639 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 644282000640 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 644282000641 HSP70 interaction site [polypeptide binding]; other site 644282000642 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 644282000643 substrate binding site [polypeptide binding]; other site 644282000644 dimer interface [polypeptide binding]; other site 644282000645 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282000646 dimer interface [polypeptide binding]; other site 644282000647 putative CheW interface [polypeptide binding]; other site 644282000648 HDOD domain; Region: HDOD; pfam08668 644282000649 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282000650 Zn2+ binding site [ion binding]; other site 644282000651 Mg2+ binding site [ion binding]; other site 644282000652 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 644282000653 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 644282000654 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 644282000655 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 644282000656 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 644282000657 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 644282000658 AIR carboxylase; Region: AIRC; pfam00731 644282000659 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 644282000660 purine monophosphate binding site [chemical binding]; other site 644282000661 dimer interface [polypeptide binding]; other site 644282000662 putative catalytic residues [active] 644282000663 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 644282000664 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 644282000665 nucleotide binding site [chemical binding]; other site 644282000666 NEF interaction site [polypeptide binding]; other site 644282000667 SBD interface [polypeptide binding]; other site 644282000668 MarR family; Region: MarR_2; pfam12802 644282000669 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644282000670 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282000671 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 644282000672 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 644282000673 putative active site [active] 644282000674 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 644282000675 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 644282000676 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 644282000677 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282000678 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 644282000679 dimer interface [polypeptide binding]; other site 644282000680 Putative zinc-finger; Region: zf-HC2; pfam13490 644282000681 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 644282000682 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282000683 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644282000684 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 644282000685 homodimer interaction site [polypeptide binding]; other site 644282000686 cofactor binding site; other site 644282000687 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282000688 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 644282000689 substrate binding pocket [chemical binding]; other site 644282000690 membrane-bound complex binding site; other site 644282000691 hinge residues; other site 644282000692 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 644282000693 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282000694 putative active site [active] 644282000695 heme pocket [chemical binding]; other site 644282000696 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 644282000697 dimer interface [polypeptide binding]; other site 644282000698 phosphorylation site [posttranslational modification] 644282000699 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 644282000700 ATP binding site [chemical binding]; other site 644282000701 Mg2+ binding site [ion binding]; other site 644282000702 G-X-G motif; other site 644282000703 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 644282000704 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644282000705 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282000706 ligand binding site [chemical binding]; other site 644282000707 Domain of unknown function (DUF364); Region: DUF364; pfam04016 644282000708 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 644282000709 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 644282000710 Walker A/P-loop; other site 644282000711 ATP binding site [chemical binding]; other site 644282000712 Q-loop/lid; other site 644282000713 ABC transporter signature motif; other site 644282000714 Walker B; other site 644282000715 D-loop; other site 644282000716 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 644282000717 ABC-ATPase subunit interface; other site 644282000718 dimer interface [polypeptide binding]; other site 644282000719 putative PBP binding regions; other site 644282000720 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 644282000721 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 644282000722 intersubunit interface [polypeptide binding]; other site 644282000723 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282000724 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 644282000725 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 644282000726 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 644282000727 FeS/SAM binding site; other site 644282000728 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 644282000729 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 644282000730 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 644282000731 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282000732 S-adenosylmethionine binding site [chemical binding]; other site 644282000733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282000734 Coenzyme A binding pocket [chemical binding]; other site 644282000735 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 644282000736 Autotransporter beta-domain; Region: Autotransporter; pfam03797 644282000737 Fic family protein [Function unknown]; Region: COG3177 644282000738 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 644282000739 Fic/DOC family; Region: Fic; pfam02661 644282000740 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 644282000741 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 644282000742 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 644282000743 ATP binding site [chemical binding]; other site 644282000744 Mg++ binding site [ion binding]; other site 644282000745 motif III; other site 644282000746 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 644282000747 nucleotide binding region [chemical binding]; other site 644282000748 ATP-binding site [chemical binding]; other site 644282000749 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 644282000750 Ligand Binding Site [chemical binding]; other site 644282000751 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 644282000752 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282000753 active site 644282000754 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 644282000755 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644282000756 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 644282000757 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 644282000758 oligomer interface [polypeptide binding]; other site 644282000759 metal binding site [ion binding]; metal-binding site 644282000760 metal binding site [ion binding]; metal-binding site 644282000761 Cl binding site [ion binding]; other site 644282000762 aspartate ring; other site 644282000763 basic sphincter; other site 644282000764 putative hydrophobic gate; other site 644282000765 periplasmic entrance; other site 644282000766 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 644282000767 mce related protein; Region: MCE; pfam02470 644282000768 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 644282000769 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 644282000770 Walker A/P-loop; other site 644282000771 ATP binding site [chemical binding]; other site 644282000772 Q-loop/lid; other site 644282000773 ABC transporter signature motif; other site 644282000774 Walker B; other site 644282000775 D-loop; other site 644282000776 H-loop/switch region; other site 644282000777 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 644282000778 Permease; Region: Permease; pfam02405 644282000779 Phosphomethylpyrimidine kinase; Region: Phos_pyr_kin; pfam08543 644282000780 ATP binding site [chemical binding]; other site 644282000781 substrate binding site [chemical binding]; other site 644282000782 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 644282000783 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 644282000784 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 644282000785 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 644282000786 active site 644282000787 motif I; other site 644282000788 motif II; other site 644282000789 Biotin operon repressor [Transcription]; Region: BirA; COG1654 644282000790 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 644282000791 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 644282000792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282000793 Coenzyme A binding pocket [chemical binding]; other site 644282000794 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 644282000795 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644282000796 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 644282000797 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644282000798 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 644282000799 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 644282000800 FeS/SAM binding site; other site 644282000801 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 644282000802 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 644282000803 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 644282000804 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 644282000805 Walker A motif; other site 644282000806 ATP binding site [chemical binding]; other site 644282000807 Walker B motif; other site 644282000808 arginine finger; other site 644282000809 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 644282000810 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 644282000811 DXD motif; other site 644282000812 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 644282000813 putative active site pocket [active] 644282000814 cleavage site 644282000815 Heavy-metal resistance; Region: Metal_resist; pfam13801 644282000816 dimer interface [polypeptide binding]; other site 644282000817 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 644282000818 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282000819 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 644282000820 DNA binding residues [nucleotide binding] 644282000821 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 644282000822 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 644282000823 putative active site [active] 644282000824 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 644282000825 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 644282000826 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 644282000827 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 644282000828 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 644282000829 TPP-binding site [chemical binding]; other site 644282000830 dimer interface [polypeptide binding]; other site 644282000831 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 644282000832 PYR/PP interface [polypeptide binding]; other site 644282000833 dimer interface [polypeptide binding]; other site 644282000834 TPP binding site [chemical binding]; other site 644282000835 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644282000836 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]; Region: MCM2; COG1241 644282000837 Uncharacterized conserved protein [Function unknown]; Region: COG4198 644282000838 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 644282000839 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 644282000840 Methyltransferase domain; Region: Methyltransf_26; pfam13659 644282000841 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 644282000842 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 644282000843 dimerization interface [polypeptide binding]; other site 644282000844 ATP binding site [chemical binding]; other site 644282000845 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 644282000846 dimerization interface [polypeptide binding]; other site 644282000847 ATP binding site [chemical binding]; other site 644282000848 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 644282000849 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 644282000850 conserved cys residue [active] 644282000851 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 644282000852 generic binding surface I; other site 644282000853 generic binding surface II; other site 644282000854 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282000855 Zn2+ binding site [ion binding]; other site 644282000856 Mg2+ binding site [ion binding]; other site 644282000857 thymidylate kinase; Validated; Region: tmk; PRK00698 644282000858 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 644282000859 TMP-binding site; other site 644282000860 ATP-binding site [chemical binding]; other site 644282000861 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 644282000862 PSP1 C-terminal conserved region; Region: PSP1; cl00770 644282000863 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 644282000864 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 644282000865 active site 644282000866 HIGH motif; other site 644282000867 KMSKS motif; other site 644282000868 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 644282000869 tRNA binding surface [nucleotide binding]; other site 644282000870 anticodon binding site; other site 644282000871 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 644282000872 dimer interface [polypeptide binding]; other site 644282000873 putative tRNA-binding site [nucleotide binding]; other site 644282000874 Flagellar protein YcgR; Region: YcgR_2; pfam12945 644282000875 PilZ domain; Region: PilZ; pfam07238 644282000876 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 644282000877 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 644282000878 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 644282000879 substrate binding pocket [chemical binding]; other site 644282000880 dimer interface [polypeptide binding]; other site 644282000881 inhibitor binding site; inhibition site 644282000882 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 644282000883 Putative Fe-S cluster; Region: FeS; pfam04060 644282000884 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 644282000885 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 644282000886 ACS interaction site; other site 644282000887 CODH interaction site; other site 644282000888 metal cluster binding site [ion binding]; other site 644282000889 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 644282000890 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 644282000891 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 644282000892 ACS interaction site; other site 644282000893 CODH interaction site; other site 644282000894 metal cluster binding site [ion binding]; other site 644282000895 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 644282000896 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 644282000897 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 644282000898 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282000899 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 644282000900 DnaA N-terminal domain; Region: DnaA_N; pfam11638 644282000901 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 644282000902 Walker A motif; other site 644282000903 ATP binding site [chemical binding]; other site 644282000904 Walker B motif; other site 644282000905 arginine finger; other site 644282000906 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 644282000907 DnaA box-binding interface [nucleotide binding]; other site 644282000908 DNA polymerase III subunit beta; Validated; Region: PRK05643 644282000909 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 644282000910 putative DNA binding surface [nucleotide binding]; other site 644282000911 dimer interface [polypeptide binding]; other site 644282000912 beta-clamp/clamp loader binding surface; other site 644282000913 beta-clamp/translesion DNA polymerase binding surface; other site 644282000914 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282000915 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 644282000916 substrate binding pocket [chemical binding]; other site 644282000917 membrane-bound complex binding site; other site 644282000918 hinge residues; other site 644282000919 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 644282000920 active site 644282000921 catalytic motif [active] 644282000922 Zn binding site [ion binding]; other site 644282000923 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 644282000924 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282000925 binding surface 644282000926 TPR motif; other site 644282000927 PAS fold; Region: PAS_4; pfam08448 644282000928 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 644282000929 putative active site [active] 644282000930 heme pocket [chemical binding]; other site 644282000931 GAF domain; Region: GAF; pfam01590 644282000932 GAF domain; Region: GAF_2; pfam13185 644282000933 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 644282000934 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282000935 putative active site [active] 644282000936 heme pocket [chemical binding]; other site 644282000937 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 644282000938 dimer interface [polypeptide binding]; other site 644282000939 phosphorylation site [posttranslational modification] 644282000940 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 644282000941 ATP binding site [chemical binding]; other site 644282000942 Mg2+ binding site [ion binding]; other site 644282000943 G-X-G motif; other site 644282000944 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282000945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000946 active site 644282000947 phosphorylation site [posttranslational modification] 644282000948 intermolecular recognition site; other site 644282000949 dimerization interface [polypeptide binding]; other site 644282000950 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 644282000951 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000953 active site 644282000954 phosphorylation site [posttranslational modification] 644282000955 intermolecular recognition site; other site 644282000956 dimerization interface [polypeptide binding]; other site 644282000957 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 644282000958 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282000959 Walker A motif; other site 644282000960 ATP binding site [chemical binding]; other site 644282000961 Walker B motif; other site 644282000962 arginine finger; other site 644282000963 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 644282000964 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 644282000965 ATP binding site [chemical binding]; other site 644282000966 Mg2+ binding site [ion binding]; other site 644282000967 G-X-G motif; other site 644282000968 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 644282000969 anchoring element; other site 644282000970 dimer interface [polypeptide binding]; other site 644282000971 ATP binding site [chemical binding]; other site 644282000972 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 644282000973 active site 644282000974 putative metal-binding site [ion binding]; other site 644282000975 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 644282000976 Transcriptional regulators [Transcription]; Region: MarR; COG1846 644282000977 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 644282000978 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 644282000979 putative acyltransferase; Provisional; Region: PRK05790 644282000980 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 644282000981 dimer interface [polypeptide binding]; other site 644282000982 active site 644282000983 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282000984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282000985 metal binding site [ion binding]; metal-binding site 644282000986 active site 644282000987 I-site; other site 644282000988 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 644282000989 hypothetical protein; Reviewed; Region: PRK09588 644282000990 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282000991 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 644282000992 4Fe-4S binding domain; Region: Fer4; pfam00037 644282000993 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 644282000994 putative FMN binding site [chemical binding]; other site 644282000995 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 644282000996 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 644282000997 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 644282000998 DNA gyrase subunit A; Validated; Region: PRK05560 644282000999 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 644282001000 CAP-like domain; other site 644282001001 active site 644282001002 primary dimer interface [polypeptide binding]; other site 644282001003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282001004 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282001005 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282001006 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282001007 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282001008 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282001009 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282001010 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 644282001011 Glucose inhibited division protein A; Region: GIDA; pfam01134 644282001012 PAS domain S-box; Region: sensory_box; TIGR00229 644282001013 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 644282001014 putative active site [active] 644282001015 heme pocket [chemical binding]; other site 644282001016 PAS fold; Region: PAS_4; pfam08448 644282001017 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 644282001018 putative active site [active] 644282001019 heme pocket [chemical binding]; other site 644282001020 PAS domain; Region: PAS_8; pfam13188 644282001021 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282001022 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 644282001023 dimer interface [polypeptide binding]; other site 644282001024 phosphorylation site [posttranslational modification] 644282001025 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 644282001026 ATP binding site [chemical binding]; other site 644282001027 Mg2+ binding site [ion binding]; other site 644282001028 G-X-G motif; other site 644282001029 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 644282001030 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 644282001031 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 644282001032 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 644282001033 trmE is a tRNA modification GTPase; Region: trmE; cd04164 644282001034 G1 box; other site 644282001035 GTP/Mg2+ binding site [chemical binding]; other site 644282001036 Switch I region; other site 644282001037 G2 box; other site 644282001038 Switch II region; other site 644282001039 G3 box; other site 644282001040 G4 box; other site 644282001041 G5 box; other site 644282001042 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 644282001043 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 644282001044 G-X-X-G motif; other site 644282001045 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 644282001046 RxxxH motif; other site 644282001047 membrane protein insertase; Provisional; Region: PRK01318 644282001048 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 644282001049 Haemolytic domain; Region: Haemolytic; pfam01809 644282001050 Ribonuclease P; Region: Ribonuclease_P; pfam00825 644282001051 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 644282001052 rod shape-determining protein MreB; Provisional; Region: PRK13927 644282001053 MreB and similar proteins; Region: MreB_like; cd10225 644282001054 nucleotide binding site [chemical binding]; other site 644282001055 Mg binding site [ion binding]; other site 644282001056 putative protofilament interaction site [polypeptide binding]; other site 644282001057 RodZ interaction site [polypeptide binding]; other site 644282001058 rod shape-determining protein MreC; Provisional; Region: PRK13922 644282001059 rod shape-determining protein MreC; Region: MreC; pfam04085 644282001060 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 644282001061 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 644282001062 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 644282001063 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 644282001064 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 644282001065 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 644282001066 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 644282001067 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 644282001068 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 644282001069 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 644282001070 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 644282001071 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 644282001072 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 644282001073 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 644282001074 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 644282001075 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 644282001076 beta subunit interaction interface [polypeptide binding]; other site 644282001077 Walker A motif; other site 644282001078 ATP binding site [chemical binding]; other site 644282001079 Walker B motif; other site 644282001080 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 644282001081 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 644282001082 core domain interface [polypeptide binding]; other site 644282001083 delta subunit interface [polypeptide binding]; other site 644282001084 epsilon subunit interface [polypeptide binding]; other site 644282001085 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 644282001086 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 644282001087 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 644282001088 alpha subunit interaction interface [polypeptide binding]; other site 644282001089 Walker A motif; other site 644282001090 ATP binding site [chemical binding]; other site 644282001091 Walker B motif; other site 644282001092 inhibitor binding site; inhibition site 644282001093 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 644282001094 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 644282001095 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 644282001096 gamma subunit interface [polypeptide binding]; other site 644282001097 epsilon subunit interface [polypeptide binding]; other site 644282001098 LBP interface [polypeptide binding]; other site 644282001099 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 644282001100 active site 644282001101 oxyanion hole [active] 644282001102 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 644282001103 Substrate binding site; other site 644282001104 Mg++ binding site; other site 644282001105 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 644282001106 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 644282001107 glutaminase active site [active] 644282001108 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 644282001109 dimer interface [polypeptide binding]; other site 644282001110 active site 644282001111 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 644282001112 dimer interface [polypeptide binding]; other site 644282001113 active site 644282001114 Cell division protein ZapA; Region: ZapA; pfam05164 644282001115 phosphodiesterase; Provisional; Region: PRK12704 644282001116 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282001117 Zn2+ binding site [ion binding]; other site 644282001118 Mg2+ binding site [ion binding]; other site 644282001119 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282001120 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 644282001121 putative active site [active] 644282001122 metal binding site [ion binding]; metal-binding site 644282001123 homodimer binding site [polypeptide binding]; other site 644282001124 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 644282001125 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 644282001126 active site 644282001127 HIGH motif; other site 644282001128 dimer interface [polypeptide binding]; other site 644282001129 KMSKS motif; other site 644282001130 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282001131 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282001132 acyl-activating enzyme (AAE) consensus motif; other site 644282001133 AMP binding site [chemical binding]; other site 644282001134 active site 644282001135 CoA binding site [chemical binding]; other site 644282001136 Fic family protein [Function unknown]; Region: COG3177 644282001137 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 644282001138 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 644282001139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282001140 catalytic residue [active] 644282001141 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 644282001142 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 644282001143 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 644282001144 Cation efflux family; Region: Cation_efflux; pfam01545 644282001145 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644282001146 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644282001147 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282001148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282001149 metal binding site [ion binding]; metal-binding site 644282001150 active site 644282001151 I-site; other site 644282001152 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 644282001153 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 644282001154 active site 644282001155 acyl-activating enzyme (AAE) consensus motif; other site 644282001156 putative CoA binding site [chemical binding]; other site 644282001157 AMP binding site [chemical binding]; other site 644282001158 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 644282001159 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 644282001160 Walker A/P-loop; other site 644282001161 ATP binding site [chemical binding]; other site 644282001162 Q-loop/lid; other site 644282001163 ABC transporter signature motif; other site 644282001164 Walker B; other site 644282001165 D-loop; other site 644282001166 H-loop/switch region; other site 644282001167 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 644282001168 ABC-2 type transporter; Region: ABC2_membrane; cl17235 644282001169 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282001170 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 644282001171 S-adenosylmethionine binding site [chemical binding]; other site 644282001172 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 644282001173 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 644282001174 intersubunit interface [polypeptide binding]; other site 644282001175 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 644282001176 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 644282001177 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 644282001178 Walker A/P-loop; other site 644282001179 ATP binding site [chemical binding]; other site 644282001180 Q-loop/lid; other site 644282001181 ABC transporter signature motif; other site 644282001182 Walker B; other site 644282001183 D-loop; other site 644282001184 H-loop/switch region; other site 644282001185 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 644282001186 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 644282001187 dimer interface [polypeptide binding]; other site 644282001188 ABC-ATPase subunit interface; other site 644282001189 putative PBP binding regions; other site 644282001190 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 644282001191 homodimer interaction site [polypeptide binding]; other site 644282001192 cofactor binding site; other site 644282001193 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 644282001194 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282001195 N-terminal plug; other site 644282001196 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 644282001197 dimerization interface [polypeptide binding]; other site 644282001198 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 644282001199 dimer interface [polypeptide binding]; other site 644282001200 phosphorylation site [posttranslational modification] 644282001201 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 644282001202 ATP binding site [chemical binding]; other site 644282001203 Mg2+ binding site [ion binding]; other site 644282001204 G-X-G motif; other site 644282001205 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001207 active site 644282001208 phosphorylation site [posttranslational modification] 644282001209 intermolecular recognition site; other site 644282001210 dimerization interface [polypeptide binding]; other site 644282001211 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282001212 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282001213 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 644282001214 transmembrane helices; other site 644282001215 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644282001216 TrkA-C domain; Region: TrkA_C; pfam02080 644282001217 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 644282001218 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282001219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001220 active site 644282001221 phosphorylation site [posttranslational modification] 644282001222 intermolecular recognition site; other site 644282001223 dimerization interface [polypeptide binding]; other site 644282001224 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 644282001225 Walker A motif; other site 644282001226 ATP binding site [chemical binding]; other site 644282001227 Walker B motif; other site 644282001228 arginine finger; other site 644282001229 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282001230 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 644282001231 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 644282001232 CoenzymeA binding site [chemical binding]; other site 644282001233 subunit interaction site [polypeptide binding]; other site 644282001234 PHB binding site; other site 644282001235 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 644282001236 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 644282001237 dimerization interface [polypeptide binding]; other site 644282001238 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 644282001239 putative active site [active] 644282001240 heme pocket [chemical binding]; other site 644282001241 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 644282001242 dimer interface [polypeptide binding]; other site 644282001243 phosphorylation site [posttranslational modification] 644282001244 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 644282001245 ATP binding site [chemical binding]; other site 644282001246 Mg2+ binding site [ion binding]; other site 644282001247 G-X-G motif; other site 644282001248 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282001249 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001250 active site 644282001251 phosphorylation site [posttranslational modification] 644282001252 intermolecular recognition site; other site 644282001253 dimerization interface [polypeptide binding]; other site 644282001254 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 644282001255 Walker A motif; other site 644282001256 ATP binding site [chemical binding]; other site 644282001257 Walker B motif; other site 644282001258 arginine finger; other site 644282001259 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 644282001260 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 644282001261 Protein of unknown function (DUF2375); Region: DUF2375; cl09781 644282001262 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 644282001263 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 644282001264 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 644282001265 tRNA; other site 644282001266 putative tRNA binding site [nucleotide binding]; other site 644282001267 putative NADP binding site [chemical binding]; other site 644282001268 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 644282001269 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 644282001270 Dodecin; Region: Dodecin; pfam07311 644282001271 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 644282001272 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 644282001273 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 644282001274 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 644282001275 PYR/PP interface [polypeptide binding]; other site 644282001276 dimer interface [polypeptide binding]; other site 644282001277 TPP binding site [chemical binding]; other site 644282001278 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 644282001279 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 644282001280 TPP-binding site [chemical binding]; other site 644282001281 dimer interface [polypeptide binding]; other site 644282001282 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 644282001283 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 644282001284 putative valine binding site [chemical binding]; other site 644282001285 dimer interface [polypeptide binding]; other site 644282001286 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 644282001287 ketol-acid reductoisomerase; Provisional; Region: PRK05479 644282001288 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 644282001289 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 644282001290 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 644282001291 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 644282001292 substrate binding site [chemical binding]; other site 644282001293 ligand binding site [chemical binding]; other site 644282001294 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 644282001295 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 644282001296 substrate binding site [chemical binding]; other site 644282001297 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 644282001298 tartrate dehydrogenase; Region: TTC; TIGR02089 644282001299 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 644282001300 glycogen branching enzyme; Provisional; Region: PRK12313 644282001301 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 644282001302 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 644282001303 active site 644282001304 catalytic site [active] 644282001305 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 644282001306 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 644282001307 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 644282001308 putative dimer interface [polypeptide binding]; other site 644282001309 putative anticodon binding site; other site 644282001310 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 644282001311 homodimer interface [polypeptide binding]; other site 644282001312 motif 1; other site 644282001313 motif 2; other site 644282001314 active site 644282001315 motif 3; other site 644282001316 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 644282001317 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282001318 ligand binding site [chemical binding]; other site 644282001319 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282001320 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644282001321 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282001322 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 644282001323 putative active site [active] 644282001324 heme pocket [chemical binding]; other site 644282001325 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 644282001326 dimer interface [polypeptide binding]; other site 644282001327 phosphorylation site [posttranslational modification] 644282001328 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 644282001329 ATP binding site [chemical binding]; other site 644282001330 Mg2+ binding site [ion binding]; other site 644282001331 G-X-G motif; other site 644282001332 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 644282001333 active site 644282001334 catalytic residues [active] 644282001335 metal binding site [ion binding]; metal-binding site 644282001336 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 644282001337 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 644282001338 putative active site [active] 644282001339 substrate binding site [chemical binding]; other site 644282001340 putative cosubstrate binding site; other site 644282001341 catalytic site [active] 644282001342 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 644282001343 substrate binding site [chemical binding]; other site 644282001344 16S rRNA methyltransferase B; Provisional; Region: PRK14901 644282001345 NusB family; Region: NusB; pfam01029 644282001346 putative RNA binding site [nucleotide binding]; other site 644282001347 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 644282001348 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 644282001349 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 644282001350 inhibitor-cofactor binding pocket; inhibition site 644282001351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282001352 catalytic residue [active] 644282001353 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 644282001354 Ligand binding site; other site 644282001355 Putative Catalytic site; other site 644282001356 DXD motif; other site 644282001357 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 644282001358 putative trimer interface [polypeptide binding]; other site 644282001359 putative CoA binding site [chemical binding]; other site 644282001360 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 644282001361 putative trimer interface [polypeptide binding]; other site 644282001362 putative active site [active] 644282001363 putative substrate binding site [chemical binding]; other site 644282001364 putative CoA binding site [chemical binding]; other site 644282001365 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 644282001366 putative trimer interface [polypeptide binding]; other site 644282001367 putative CoA binding site [chemical binding]; other site 644282001368 WxcM-like, C-terminal; Region: FdtA; pfam05523 644282001369 GtrA-like protein; Region: GtrA; pfam04138 644282001370 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 644282001371 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 644282001372 catalytic core [active] 644282001373 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 644282001374 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 644282001375 hydrophobic ligand binding site; other site 644282001376 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 644282001377 Ligand Binding Site [chemical binding]; other site 644282001378 Uncharacterized conserved protein [Function unknown]; Region: COG2454 644282001379 PAS domain S-box; Region: sensory_box; TIGR00229 644282001380 PAS domain S-box; Region: sensory_box; TIGR00229 644282001381 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 644282001382 putative active site [active] 644282001383 heme pocket [chemical binding]; other site 644282001384 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282001385 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 644282001386 putative active site [active] 644282001387 heme pocket [chemical binding]; other site 644282001388 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 644282001389 ATP binding site [chemical binding]; other site 644282001390 Mg2+ binding site [ion binding]; other site 644282001391 G-X-G motif; other site 644282001392 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001394 active site 644282001395 phosphorylation site [posttranslational modification] 644282001396 intermolecular recognition site; other site 644282001397 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 644282001398 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 644282001399 substrate binding site [chemical binding]; other site 644282001400 hexamer interface [polypeptide binding]; other site 644282001401 metal binding site [ion binding]; metal-binding site 644282001402 hypothetical protein; Provisional; Region: PRK02237 644282001403 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 644282001404 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 644282001405 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 644282001406 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282001407 catalytic residue [active] 644282001408 purine nucleoside phosphorylase; Provisional; Region: PRK08202 644282001409 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 644282001410 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 644282001411 active site 644282001412 putative substrate binding pocket [chemical binding]; other site 644282001413 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 644282001414 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 644282001415 active site 644282001416 putative substrate binding pocket [chemical binding]; other site 644282001417 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 644282001418 putative catalytic site [active] 644282001419 putative phosphate binding site [ion binding]; other site 644282001420 putative metal binding site [ion binding]; other site 644282001421 XXXCH domain; Region: XXXCH_domain; TIGR04358 644282001422 amphi-Trp domain; Region: amphi-Trp; TIGR04354 644282001423 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 644282001424 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 644282001425 phosphate binding site [ion binding]; other site 644282001426 putative substrate binding pocket [chemical binding]; other site 644282001427 dimer interface [polypeptide binding]; other site 644282001428 HprK-related kinase B; Region: HprK_rel_B; TIGR04355 644282001429 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 644282001430 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644282001431 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 644282001432 PhoU domain; Region: PhoU; pfam01895 644282001433 PhoU domain; Region: PhoU; pfam01895 644282001434 Phosphotransferase enzyme family; Region: APH; pfam01636 644282001435 Ecdysteroid kinase; Region: EcKinase; cl17738 644282001436 amphi-Trp domain; Region: amphi-Trp; TIGR04354 644282001437 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 644282001438 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 644282001439 acyl-activating enzyme (AAE) consensus motif; other site 644282001440 putative AMP binding site [chemical binding]; other site 644282001441 putative active site [active] 644282001442 putative CoA binding site [chemical binding]; other site 644282001443 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 644282001444 active site 644282001445 substrate binding pocket [chemical binding]; other site 644282001446 homodimer interaction site [polypeptide binding]; other site 644282001447 excinuclease ABC subunit B; Provisional; Region: PRK05298 644282001448 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 644282001449 ATP binding site [chemical binding]; other site 644282001450 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 644282001451 nucleotide binding region [chemical binding]; other site 644282001452 ATP-binding site [chemical binding]; other site 644282001453 Ultra-violet resistance protein B; Region: UvrB; pfam12344 644282001454 UvrB/uvrC motif; Region: UVR; pfam02151 644282001455 HDOD domain; Region: HDOD; pfam08668 644282001456 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282001457 Zn2+ binding site [ion binding]; other site 644282001458 Mg2+ binding site [ion binding]; other site 644282001459 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 644282001460 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 644282001461 molybdopterin cofactor binding site; other site 644282001462 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 644282001463 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 644282001464 molybdopterin cofactor binding site; other site 644282001465 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644282001466 MarR family; Region: MarR_2; pfam12802 644282001467 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 644282001468 PAS domain; Region: PAS_9; pfam13426 644282001469 putative active site [active] 644282001470 heme pocket [chemical binding]; other site 644282001471 PAS domain; Region: PAS_9; pfam13426 644282001472 PAS domain S-box; Region: sensory_box; TIGR00229 644282001473 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 644282001474 putative active site [active] 644282001475 heme pocket [chemical binding]; other site 644282001476 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282001477 PAS domain; Region: PAS_8; pfam13188 644282001478 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 644282001479 dimer interface [polypeptide binding]; other site 644282001480 phosphorylation site [posttranslational modification] 644282001481 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 644282001482 ATP binding site [chemical binding]; other site 644282001483 Mg2+ binding site [ion binding]; other site 644282001484 G-X-G motif; other site 644282001485 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001487 active site 644282001488 phosphorylation site [posttranslational modification] 644282001489 intermolecular recognition site; other site 644282001490 dimerization interface [polypeptide binding]; other site 644282001491 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 644282001492 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282001493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001494 active site 644282001495 phosphorylation site [posttranslational modification] 644282001496 intermolecular recognition site; other site 644282001497 dimerization interface [polypeptide binding]; other site 644282001498 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 644282001499 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 644282001500 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 644282001501 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 644282001502 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 644282001503 nucleotide binding site [chemical binding]; other site 644282001504 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 644282001505 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 644282001506 Ligand Binding Site [chemical binding]; other site 644282001507 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 644282001508 PAS domain; Region: PAS_9; pfam13426 644282001509 putative active site [active] 644282001510 heme pocket [chemical binding]; other site 644282001511 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282001512 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 644282001513 putative active site [active] 644282001514 heme pocket [chemical binding]; other site 644282001515 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 644282001516 putative active site [active] 644282001517 heme pocket [chemical binding]; other site 644282001518 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 644282001519 Histidine kinase; Region: HisKA_2; pfam07568 644282001520 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 644282001521 ATP binding site [chemical binding]; other site 644282001522 Mg2+ binding site [ion binding]; other site 644282001523 G-X-G motif; other site 644282001524 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001526 active site 644282001527 phosphorylation site [posttranslational modification] 644282001528 intermolecular recognition site; other site 644282001529 dimerization interface [polypeptide binding]; other site 644282001530 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 644282001531 PAS fold; Region: PAS_3; pfam08447 644282001532 putative active site [active] 644282001533 heme pocket [chemical binding]; other site 644282001534 PAS domain S-box; Region: sensory_box; TIGR00229 644282001535 PAS fold; Region: PAS; pfam00989 644282001536 PAS domain S-box; Region: sensory_box; TIGR00229 644282001537 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 644282001538 putative active site [active] 644282001539 heme pocket [chemical binding]; other site 644282001540 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282001541 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 644282001542 putative active site [active] 644282001543 heme pocket [chemical binding]; other site 644282001544 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 644282001545 dimer interface [polypeptide binding]; other site 644282001546 phosphorylation site [posttranslational modification] 644282001547 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 644282001548 ATP binding site [chemical binding]; other site 644282001549 Mg2+ binding site [ion binding]; other site 644282001550 G-X-G motif; other site 644282001551 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001552 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001553 active site 644282001554 phosphorylation site [posttranslational modification] 644282001555 intermolecular recognition site; other site 644282001556 dimerization interface [polypeptide binding]; other site 644282001557 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 644282001558 Putative cyclase; Region: Cyclase; pfam04199 644282001559 hypothetical protein; Provisional; Region: PRK08317 644282001560 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 644282001561 S-adenosylmethionine binding site [chemical binding]; other site 644282001562 Peptidase family M48; Region: Peptidase_M48; cl12018 644282001563 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 644282001564 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 644282001565 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 644282001566 protein binding site [polypeptide binding]; other site 644282001567 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 644282001568 2TM domain; Region: 2TM; pfam13239 644282001569 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 644282001570 lipoyl attachment site [posttranslational modification]; other site 644282001571 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 644282001572 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 644282001573 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 644282001574 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282001575 active site 644282001576 HIGH motif; other site 644282001577 nucleotide binding site [chemical binding]; other site 644282001578 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644282001579 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 644282001580 active site 644282001581 KMSKS motif; other site 644282001582 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 644282001583 tRNA binding surface [nucleotide binding]; other site 644282001584 anticodon binding site; other site 644282001585 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 644282001586 Uncharacterized conserved protein [Function unknown]; Region: COG2006 644282001587 Uncharacterized conserved protein [Function unknown]; Region: COG2006 644282001588 Domain of unknown function (DUF362); Region: DUF362; pfam04015 644282001589 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282001590 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282001591 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282001592 HDOD domain; Region: HDOD; pfam08668 644282001593 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 644282001594 dimer interface [polypeptide binding]; other site 644282001595 phosphorylation site [posttranslational modification] 644282001596 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 644282001597 ATP binding site [chemical binding]; other site 644282001598 G-X-G motif; other site 644282001599 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282001600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001601 NAD(P) binding site [chemical binding]; other site 644282001602 active site 644282001603 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 644282001604 putative deacylase active site [active] 644282001605 Family description; Region: VCBS; pfam13517 644282001606 Double zinc ribbon; Region: DZR; pfam12773 644282001607 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 644282001608 active site 644282001609 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 644282001610 ATP-sulfurylase; Region: ATPS; cd00517 644282001611 active site 644282001612 HXXH motif; other site 644282001613 flexible loop; other site 644282001614 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 644282001615 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282001616 acyl-activating enzyme (AAE) consensus motif; other site 644282001617 AMP binding site [chemical binding]; other site 644282001618 active site 644282001619 CoA binding site [chemical binding]; other site 644282001620 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 644282001621 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 644282001622 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644282001623 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 644282001624 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644282001625 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282001626 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282001627 Coenzyme A binding pocket [chemical binding]; other site 644282001628 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 644282001629 DEAD-like helicases superfamily; Region: DEXDc; smart00487 644282001630 ATP binding site [chemical binding]; other site 644282001631 Mg++ binding site [ion binding]; other site 644282001632 motif III; other site 644282001633 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 644282001634 nucleotide binding region [chemical binding]; other site 644282001635 ATP-binding site [chemical binding]; other site 644282001636 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 644282001637 RNA binding site [nucleotide binding]; other site 644282001638 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 644282001639 active site 644282001640 catalytic residues [active] 644282001641 metal binding site [ion binding]; metal-binding site 644282001642 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 644282001643 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 644282001644 FeS/SAM binding site; other site 644282001645 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 644282001646 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 644282001647 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 644282001648 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 644282001649 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 644282001650 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 644282001651 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 644282001652 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 644282001653 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 644282001654 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 644282001655 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 644282001656 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 644282001657 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282001658 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 644282001659 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282001660 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 644282001661 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 644282001662 Nucleotide-binding sites [chemical binding]; other site 644282001663 Walker A motif; other site 644282001664 Switch I region of nucleotide binding site; other site 644282001665 Fe4S4 binding sites [ion binding]; other site 644282001666 Switch II region of nucleotide binding site; other site 644282001667 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282001668 TrkA-N domain; Region: TrkA_N; pfam02254 644282001669 TrkA-C domain; Region: TrkA_C; pfam02080 644282001670 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 644282001671 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 644282001672 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 644282001673 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 644282001674 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282001675 Zn2+ binding site [ion binding]; other site 644282001676 Mg2+ binding site [ion binding]; other site 644282001677 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 644282001678 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282001679 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 644282001680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282001681 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 644282001682 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282001683 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 644282001684 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 644282001685 Walker A/P-loop; other site 644282001686 ATP binding site [chemical binding]; other site 644282001687 Q-loop/lid; other site 644282001688 ABC transporter signature motif; other site 644282001689 Walker B; other site 644282001690 D-loop; other site 644282001691 H-loop/switch region; other site 644282001692 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 644282001693 putative carbohydrate binding site [chemical binding]; other site 644282001694 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 644282001695 CoA binding domain; Region: CoA_binding; cl17356 644282001696 Bacterial sugar transferase; Region: Bac_transf; pfam02397 644282001697 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 644282001698 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 644282001699 trimer interface [polypeptide binding]; other site 644282001700 dimer interface [polypeptide binding]; other site 644282001701 putative active site [active] 644282001702 chaperone protein DnaJ; Provisional; Region: PRK10767 644282001703 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 644282001704 HSP70 interaction site [polypeptide binding]; other site 644282001705 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 644282001706 substrate binding site [polypeptide binding]; other site 644282001707 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 644282001708 Zn binding sites [ion binding]; other site 644282001709 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 644282001710 dimer interface [polypeptide binding]; other site 644282001711 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 644282001712 Activator of aromatic catabolism; Region: XylR_N; pfam06505 644282001713 V4R domain; Region: V4R; cl15268 644282001714 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 644282001715 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 644282001716 Walker A motif; other site 644282001717 ATP binding site [chemical binding]; other site 644282001718 Walker B motif; other site 644282001719 arginine finger; other site 644282001720 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282001721 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 644282001722 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 644282001723 active site 644282001724 metal binding site [ion binding]; metal-binding site 644282001725 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644282001726 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 644282001727 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 644282001728 acyl-activating enzyme (AAE) consensus motif; other site 644282001729 putative AMP binding site [chemical binding]; other site 644282001730 putative active site [active] 644282001731 putative CoA binding site [chemical binding]; other site 644282001732 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282001733 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 644282001734 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282001735 SnoaL-like domain; Region: SnoaL_3; pfam13474 644282001736 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 644282001737 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 644282001738 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 644282001739 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 644282001740 putative NADH binding site [chemical binding]; other site 644282001741 putative active site [active] 644282001742 nudix motif; other site 644282001743 putative metal binding site [ion binding]; other site 644282001744 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 644282001745 active site 644282001746 translation initiation factor IF-3; Region: infC; TIGR00168 644282001747 Secretin and TonB N terminus short domain; Region: STN; smart00965 644282001748 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 644282001749 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282001750 N-terminal plug; other site 644282001751 ligand-binding site [chemical binding]; other site 644282001752 Uncharacterized subfamily of S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase_like; cd11724 644282001753 putative SAM binding site [chemical binding]; other site 644282001754 putative homodimer interface [polypeptide binding]; other site 644282001755 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 644282001756 prephenate dehydrogenase; Validated; Region: PRK08507 644282001757 Chorismate mutase type II; Region: CM_2; pfam01817 644282001758 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 644282001759 Prephenate dehydratase; Region: PDT; pfam00800 644282001760 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 644282001761 putative L-Phe binding site [chemical binding]; other site 644282001762 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 644282001763 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 644282001764 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 644282001765 catalytic loop [active] 644282001766 iron binding site [ion binding]; other site 644282001767 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 644282001768 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282001769 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 644282001770 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 644282001771 molybdopterin cofactor binding site; other site 644282001772 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 644282001773 molybdopterin cofactor binding site; other site 644282001774 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 644282001775 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644282001776 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 644282001777 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282001778 dimer interface [polypeptide binding]; other site 644282001779 putative CheW interface [polypeptide binding]; other site 644282001780 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 644282001781 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 644282001782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644282001783 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282001784 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 644282001785 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 644282001786 catalytic loop [active] 644282001787 iron binding site [ion binding]; other site 644282001788 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 644282001789 4Fe-4S binding domain; Region: Fer4; pfam00037 644282001790 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 644282001791 molybdopterin cofactor binding site; other site 644282001792 Staphylococcal nuclease homologues; Region: SNc; smart00318 644282001793 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 644282001794 Catalytic site; other site 644282001795 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 644282001796 active site 644282001797 dimerization interface [polypeptide binding]; other site 644282001798 ribonuclease PH; Reviewed; Region: rph; PRK00173 644282001799 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 644282001800 oligomer interface [polypeptide binding]; other site 644282001801 RNA binding site [nucleotide binding]; other site 644282001802 Winged helix-turn helix; Region: HTH_29; pfam13551 644282001803 Helix-turn-helix domain; Region: HTH_28; pfam13518 644282001804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 644282001805 Integrase core domain; Region: rve; pfam00665 644282001806 Integrase core domain; Region: rve_3; pfam13683 644282001807 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 644282001808 Winged helix-turn helix; Region: HTH_29; pfam13551 644282001809 Helix-turn-helix domain; Region: HTH_28; pfam13518 644282001810 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 644282001811 Integrase core domain; Region: rve; pfam00665 644282001812 Integrase core domain; Region: rve_3; pfam13683 644282001813 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 644282001814 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 644282001815 ring oligomerisation interface [polypeptide binding]; other site 644282001816 ATP/Mg binding site [chemical binding]; other site 644282001817 stacking interactions; other site 644282001818 hinge regions; other site 644282001819 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 644282001820 oligomerisation interface [polypeptide binding]; other site 644282001821 mobile loop; other site 644282001822 roof hairpin; other site 644282001823 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 644282001824 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 644282001825 FeS/SAM binding site; other site 644282001826 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 644282001827 NADPH bind site [chemical binding]; other site 644282001828 putative FMN binding site [chemical binding]; other site 644282001829 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 644282001830 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 644282001831 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 644282001832 active site 644282001833 catalytic site [active] 644282001834 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 644282001835 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 644282001836 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 644282001837 active site 644282001838 catalytic site [active] 644282001839 homodimer interface [polypeptide binding]; other site 644282001840 Lid 1; other site 644282001841 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 644282001842 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 644282001843 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 644282001844 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 644282001845 FOG: CBS domain [General function prediction only]; Region: COG0517 644282001846 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282001847 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282001848 metal binding site [ion binding]; metal-binding site 644282001849 active site 644282001850 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 644282001851 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282001852 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282001853 active site 644282001854 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 644282001855 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282001856 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 644282001857 acyl-activating enzyme (AAE) consensus motif; other site 644282001858 putative AMP binding site [chemical binding]; other site 644282001859 putative active site [active] 644282001860 putative CoA binding site [chemical binding]; other site 644282001861 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 644282001862 TPR motif; other site 644282001863 binding surface 644282001864 TPR repeat; Region: TPR_11; pfam13414 644282001865 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282001866 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 644282001867 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 644282001868 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282001869 catalytic residue [active] 644282001870 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 644282001871 dimer interface [polypeptide binding]; other site 644282001872 ADP-ribose binding site [chemical binding]; other site 644282001873 active site 644282001874 nudix motif; other site 644282001875 metal binding site [ion binding]; metal-binding site 644282001876 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 644282001877 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 644282001878 YGGT family; Region: YGGT; pfam02325 644282001879 PilZ domain; Region: PilZ; pfam07238 644282001880 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282001881 TPR motif; other site 644282001882 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 644282001883 active site residue [active] 644282001884 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 644282001885 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 644282001886 MOFRL family; Region: MOFRL; pfam05161 644282001887 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 644282001888 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 644282001889 Walker A/P-loop; other site 644282001890 ATP binding site [chemical binding]; other site 644282001891 Q-loop/lid; other site 644282001892 ABC transporter signature motif; other site 644282001893 Walker B; other site 644282001894 D-loop; other site 644282001895 H-loop/switch region; other site 644282001896 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 644282001897 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 644282001898 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 644282001899 Walker A/P-loop; other site 644282001900 ATP binding site [chemical binding]; other site 644282001901 Q-loop/lid; other site 644282001902 ABC transporter signature motif; other site 644282001903 Walker B; other site 644282001904 D-loop; other site 644282001905 H-loop/switch region; other site 644282001906 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 644282001907 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 644282001908 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 644282001909 intersubunit interface [polypeptide binding]; other site 644282001910 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282001911 dimer interface [polypeptide binding]; other site 644282001912 putative CheW interface [polypeptide binding]; other site 644282001913 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 644282001914 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 644282001915 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644282001916 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282001917 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644282001918 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282001919 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 644282001920 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 644282001921 Walker A/P-loop; other site 644282001922 ATP binding site [chemical binding]; other site 644282001923 Q-loop/lid; other site 644282001924 ABC transporter signature motif; other site 644282001925 Walker B; other site 644282001926 D-loop; other site 644282001927 H-loop/switch region; other site 644282001928 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 644282001929 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 644282001930 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 644282001931 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 644282001932 enoyl-CoA hydratase; Provisional; Region: PRK06142 644282001933 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 644282001934 substrate binding site [chemical binding]; other site 644282001935 oxyanion hole (OAH) forming residues; other site 644282001936 trimer interface [polypeptide binding]; other site 644282001937 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 644282001938 S-adenosylmethionine binding site [chemical binding]; other site 644282001939 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 644282001940 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282001941 NYN domain; Region: NYN; pfam01936 644282001942 putative metal binding site [ion binding]; other site 644282001943 OST-HTH/LOTUS domain; Region: OST-HTH; pfam12872 644282001944 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 644282001945 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 644282001946 active site 644282001947 HIGH motif; other site 644282001948 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 644282001949 KMSKS motif; other site 644282001950 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 644282001951 tRNA binding surface [nucleotide binding]; other site 644282001952 anticodon binding site; other site 644282001953 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 644282001954 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 644282001955 substrate binding site; other site 644282001956 dimer interface; other site 644282001957 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 644282001958 homotrimer interaction site [polypeptide binding]; other site 644282001959 zinc binding site [ion binding]; other site 644282001960 CDP-binding sites; other site 644282001961 Domain of unknown function (DUF309); Region: DUF309; pfam03745 644282001962 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 644282001963 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 644282001964 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 644282001965 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644282001966 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282001967 dimer interface [polypeptide binding]; other site 644282001968 putative CheW interface [polypeptide binding]; other site 644282001969 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 644282001970 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 644282001971 FeS/SAM binding site; other site 644282001972 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 644282001973 PAS domain; Region: PAS_9; pfam13426 644282001974 putative active site [active] 644282001975 heme pocket [chemical binding]; other site 644282001976 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282001977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282001978 metal binding site [ion binding]; metal-binding site 644282001979 active site 644282001980 I-site; other site 644282001981 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 644282001982 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282001983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282001984 metal binding site [ion binding]; metal-binding site 644282001985 active site 644282001986 I-site; other site 644282001987 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282001988 Cna protein B-type domain; Region: Cna_B; pfam05738 644282001989 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 644282001990 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 644282001991 G1 box; other site 644282001992 GTP/Mg2+ binding site [chemical binding]; other site 644282001993 Switch I region; other site 644282001994 G2 box; other site 644282001995 G3 box; other site 644282001996 Switch II region; other site 644282001997 G4 box; other site 644282001998 G5 box; other site 644282001999 Nucleoside recognition; Region: Gate; pfam07670 644282002000 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 644282002001 Nucleoside recognition; Region: Gate; pfam07670 644282002002 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 644282002003 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 644282002004 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644282002005 Soluble P-type ATPase [General function prediction only]; Region: COG4087 644282002006 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 644282002007 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644282002008 Soluble P-type ATPase [General function prediction only]; Region: COG4087 644282002009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282002010 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 644282002011 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 644282002012 substrate binding pocket [chemical binding]; other site 644282002013 chain length determination region; other site 644282002014 substrate-Mg2+ binding site; other site 644282002015 catalytic residues [active] 644282002016 aspartate-rich region 1; other site 644282002017 active site lid residues [active] 644282002018 aspartate-rich region 2; other site 644282002019 GIY-YIG domain of uncharacterized hypothetical protein found in phycodnavirus PBCV-1 DNA virus, T. thermophila Tlr element eoncoding protein Tlr8p, and similar proteins found in bacteria; Region: GIY-YIG_HE_Tlr8p_PBC-V_like; cd10443 644282002020 GIY-YIG motif/motif A; other site 644282002021 putative active site [active] 644282002022 putative metal binding site [ion binding]; other site 644282002023 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 644282002024 active site clefts [active] 644282002025 zinc binding site [ion binding]; other site 644282002026 dimer interface [polypeptide binding]; other site 644282002027 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 644282002028 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 644282002029 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282002030 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 644282002031 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282002032 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 644282002033 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 644282002034 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 644282002035 motif II; other site 644282002036 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 644282002037 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644282002038 active site 644282002039 metal binding site [ion binding]; metal-binding site 644282002040 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 644282002041 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 644282002042 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282002043 Cysteine-rich domain; Region: CCG; pfam02754 644282002044 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 644282002045 4Fe-4S binding domain; Region: Fer4; cl02805 644282002046 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 644282002047 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 644282002048 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 644282002049 trimer interface [polypeptide binding]; other site 644282002050 putative Zn binding site [ion binding]; other site 644282002051 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 644282002052 catalytic core [active] 644282002053 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 644282002054 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 644282002055 Sodium Bile acid symporter family; Region: SBF; cl17470 644282002056 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 644282002057 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 644282002058 metal binding site [ion binding]; metal-binding site 644282002059 dimer interface [polypeptide binding]; other site 644282002060 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282002061 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282002062 active site 644282002063 Dihaem cytochrome c; Region: DHC; pfam09626 644282002064 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 644282002065 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 644282002066 inhibitor-cofactor binding pocket; inhibition site 644282002067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282002068 catalytic residue [active] 644282002069 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644282002070 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 644282002071 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 644282002072 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 644282002073 active site 644282002074 substrate binding site [chemical binding]; other site 644282002075 cosubstrate binding site; other site 644282002076 catalytic site [active] 644282002077 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 644282002078 nucleoside/Zn binding site; other site 644282002079 dimer interface [polypeptide binding]; other site 644282002080 catalytic motif [active] 644282002081 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 644282002082 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282002083 acyl-activating enzyme (AAE) consensus motif; other site 644282002084 putative AMP binding site [chemical binding]; other site 644282002085 putative active site [active] 644282002086 putative CoA binding site [chemical binding]; other site 644282002087 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 644282002088 diiron binding motif [ion binding]; other site 644282002089 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 644282002090 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282002091 dimer interface [polypeptide binding]; other site 644282002092 putative CheW interface [polypeptide binding]; other site 644282002093 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 644282002094 Cache domain; Region: Cache_1; pfam02743 644282002095 spermidine synthase; Provisional; Region: PRK00811 644282002096 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 644282002097 S-adenosylmethionine binding site [chemical binding]; other site 644282002098 acetyl-CoA synthetase; Provisional; Region: PRK04319 644282002099 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282002100 active site 644282002101 CoA binding site [chemical binding]; other site 644282002102 AMP binding site [chemical binding]; other site 644282002103 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 644282002104 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 644282002105 active site 644282002106 Zn binding site [ion binding]; other site 644282002107 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 644282002108 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 644282002109 Cl- selectivity filter; other site 644282002110 Cl- binding residues [ion binding]; other site 644282002111 pore gating glutamate residue; other site 644282002112 dimer interface [polypeptide binding]; other site 644282002113 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 644282002114 FOG: CBS domain [General function prediction only]; Region: COG0517 644282002115 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 644282002116 TPR motif; other site 644282002117 binding surface 644282002118 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282002119 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 644282002120 binding surface 644282002121 TPR motif; other site 644282002122 Protein of unknown function (DUF330); Region: DUF330; cl01135 644282002123 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 644282002124 mce related protein; Region: MCE; pfam02470 644282002125 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 644282002126 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 644282002127 Walker A/P-loop; other site 644282002128 ATP binding site [chemical binding]; other site 644282002129 Q-loop/lid; other site 644282002130 ABC transporter signature motif; other site 644282002131 Walker B; other site 644282002132 D-loop; other site 644282002133 H-loop/switch region; other site 644282002134 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 644282002135 anti sigma factor interaction site; other site 644282002136 regulatory phosphorylation site [posttranslational modification]; other site 644282002137 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 644282002138 Permease; Region: Permease; pfam02405 644282002139 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 644282002140 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 644282002141 active site 644282002142 metal binding site [ion binding]; metal-binding site 644282002143 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 644282002144 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 644282002145 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644282002146 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 644282002147 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 644282002148 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282002149 catalytic residue [active] 644282002150 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 644282002151 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282002152 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 644282002153 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282002154 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 644282002155 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282002156 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 644282002157 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282002158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002159 Response regulator receiver domain; Region: Response_reg; pfam00072 644282002160 active site 644282002161 phosphorylation site [posttranslational modification] 644282002162 intermolecular recognition site; other site 644282002163 dimerization interface [polypeptide binding]; other site 644282002164 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282002165 TPR motif; other site 644282002166 binding surface 644282002167 TPR repeat; Region: TPR_11; pfam13414 644282002168 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644282002169 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644282002170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282002171 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 644282002172 dimer interface [polypeptide binding]; other site 644282002173 phosphorylation site [posttranslational modification] 644282002174 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 644282002175 ATP binding site [chemical binding]; other site 644282002176 Mg2+ binding site [ion binding]; other site 644282002177 G-X-G motif; other site 644282002178 Uncharacterized conserved protein [Function unknown]; Region: COG1432 644282002179 LabA_like proteins; Region: LabA_like; cd06167 644282002180 putative metal binding site [ion binding]; other site 644282002181 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 644282002182 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 644282002183 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 644282002184 active site 644282002185 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 644282002186 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282002187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002188 active site 644282002189 phosphorylation site [posttranslational modification] 644282002190 intermolecular recognition site; other site 644282002191 dimerization interface [polypeptide binding]; other site 644282002192 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 644282002193 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 644282002194 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 644282002195 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 644282002196 ABC-ATPase subunit interface; other site 644282002197 dimer interface [polypeptide binding]; other site 644282002198 putative PBP binding regions; other site 644282002199 biotin synthase; Region: bioB; TIGR00433 644282002200 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 644282002201 FeS/SAM binding site; other site 644282002202 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 644282002203 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 644282002204 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 644282002205 inhibitor-cofactor binding pocket; inhibition site 644282002206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282002207 catalytic residue [active] 644282002208 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 644282002209 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 644282002210 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282002211 catalytic residue [active] 644282002212 AAA domain; Region: AAA_26; pfam13500 644282002213 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 644282002214 Cation transport protein; Region: TrkH; cl17365 644282002215 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 644282002216 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 644282002217 TrkA-N domain; Region: TrkA_N; pfam02254 644282002218 TrkA-C domain; Region: TrkA_C; pfam02080 644282002219 TrkA-N domain; Region: TrkA_N; pfam02254 644282002220 TrkA-C domain; Region: TrkA_C; pfam02080 644282002221 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002222 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 644282002223 putative ADP-binding pocket [chemical binding]; other site 644282002224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002225 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 644282002226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002227 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 644282002228 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 644282002229 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 644282002230 Ligand binding site; other site 644282002231 Putative Catalytic site; other site 644282002232 DXD motif; other site 644282002233 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002234 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 644282002235 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282002236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002237 NAD(P) binding site [chemical binding]; other site 644282002238 active site 644282002239 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 644282002240 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 644282002241 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282002242 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282002243 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282002244 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282002245 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644282002246 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282002247 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644282002248 Nif-specific regulatory protein; Region: nifA; TIGR01817 644282002249 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644282002250 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 644282002251 Walker A motif; other site 644282002252 ATP binding site [chemical binding]; other site 644282002253 Walker B motif; other site 644282002254 arginine finger; other site 644282002255 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282002256 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 644282002257 Dynamin central region; Region: Dynamin_M; pfam01031 644282002258 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282002259 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 644282002260 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282002261 Cysteine-rich domain; Region: CCG; pfam02754 644282002262 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 644282002263 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 644282002264 PAS fold; Region: PAS_4; pfam08448 644282002265 PAS domain S-box; Region: sensory_box; TIGR00229 644282002266 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 644282002267 putative active site [active] 644282002268 heme pocket [chemical binding]; other site 644282002269 GAF domain; Region: GAF_2; pfam13185 644282002270 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644282002271 PAS fold; Region: PAS_4; pfam08448 644282002272 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 644282002273 putative active site [active] 644282002274 heme pocket [chemical binding]; other site 644282002275 PAS domain; Region: PAS; smart00091 644282002276 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282002277 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 644282002278 dimer interface [polypeptide binding]; other site 644282002279 phosphorylation site [posttranslational modification] 644282002280 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 644282002281 ATP binding site [chemical binding]; other site 644282002282 Mg2+ binding site [ion binding]; other site 644282002283 G-X-G motif; other site 644282002284 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282002285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002286 active site 644282002287 phosphorylation site [posttranslational modification] 644282002288 intermolecular recognition site; other site 644282002289 dimerization interface [polypeptide binding]; other site 644282002290 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 644282002291 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 644282002292 substrate binding site [chemical binding]; other site 644282002293 active site 644282002294 catalytic residues [active] 644282002295 heterodimer interface [polypeptide binding]; other site 644282002296 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 644282002297 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 644282002298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282002299 catalytic residue [active] 644282002300 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 644282002301 active site 644282002302 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 644282002303 phosphate binding site [ion binding]; other site 644282002304 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 644282002305 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 644282002306 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 644282002307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282002308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282002309 Cache domain; Region: Cache_1; pfam02743 644282002310 HAMP domain; Region: HAMP; pfam00672 644282002311 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282002312 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 644282002313 putative active site [active] 644282002314 heme pocket [chemical binding]; other site 644282002315 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 644282002316 dimer interface [polypeptide binding]; other site 644282002317 phosphorylation site [posttranslational modification] 644282002318 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 644282002319 ATP binding site [chemical binding]; other site 644282002320 Mg2+ binding site [ion binding]; other site 644282002321 G-X-G motif; other site 644282002322 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282002323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002324 active site 644282002325 phosphorylation site [posttranslational modification] 644282002326 intermolecular recognition site; other site 644282002327 dimerization interface [polypeptide binding]; other site 644282002328 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 644282002329 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 644282002330 ligand binding site [chemical binding]; other site 644282002331 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 644282002332 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 644282002333 ligand binding site [chemical binding]; other site 644282002334 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 644282002335 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 644282002336 G1 box; other site 644282002337 GTP/Mg2+ binding site [chemical binding]; other site 644282002338 Switch I region; other site 644282002339 G2 box; other site 644282002340 G3 box; other site 644282002341 Switch II region; other site 644282002342 G4 box; other site 644282002343 G5 box; other site 644282002344 Nucleoside recognition; Region: Gate; pfam07670 644282002345 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 644282002346 Nucleoside recognition; Region: Gate; pfam07670 644282002347 FeoA domain; Region: FeoA; pfam04023 644282002348 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 644282002349 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 644282002350 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 644282002351 DctM-like transporters; Region: DctM; pfam06808 644282002352 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 644282002353 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 644282002354 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 644282002355 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 644282002356 adenylosuccinate lyase; Provisional; Region: PRK07492 644282002357 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 644282002358 tetramer interface [polypeptide binding]; other site 644282002359 active site 644282002360 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 644282002361 Protein of unknown function (DUF401); Region: DUF401; cl00830 644282002362 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 644282002363 Bacterial SH3 domain; Region: SH3_3; pfam08239 644282002364 Response regulator receiver domain; Region: Response_reg; pfam00072 644282002365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002366 active site 644282002367 phosphorylation site [posttranslational modification] 644282002368 intermolecular recognition site; other site 644282002369 dimerization interface [polypeptide binding]; other site 644282002370 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282002371 Zn2+ binding site [ion binding]; other site 644282002372 Mg2+ binding site [ion binding]; other site 644282002373 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 644282002374 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 644282002375 Ligand binding site; other site 644282002376 oligomer interface; other site 644282002377 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 644282002378 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 644282002379 inhibitor-cofactor binding pocket; inhibition site 644282002380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282002381 catalytic residue [active] 644282002382 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 644282002383 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 644282002384 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 644282002385 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 644282002386 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 644282002387 GIY-YIG motif/motif A; other site 644282002388 active site 644282002389 catalytic site [active] 644282002390 putative DNA binding site [nucleotide binding]; other site 644282002391 metal binding site [ion binding]; metal-binding site 644282002392 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 644282002393 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 644282002394 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 644282002395 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 644282002396 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 644282002397 GTP binding site; other site 644282002398 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282002399 DNA binding residues [nucleotide binding] 644282002400 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282002401 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 644282002402 PAS domain; Region: PAS_9; pfam13426 644282002403 putative active site [active] 644282002404 heme pocket [chemical binding]; other site 644282002405 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282002406 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282002407 metal binding site [ion binding]; metal-binding site 644282002408 active site 644282002409 I-site; other site 644282002410 PAS domain S-box; Region: sensory_box; TIGR00229 644282002411 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 644282002412 putative active site [active] 644282002413 heme pocket [chemical binding]; other site 644282002414 PAS domain S-box; Region: sensory_box; TIGR00229 644282002415 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 644282002416 putative active site [active] 644282002417 heme pocket [chemical binding]; other site 644282002418 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282002419 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 644282002420 substrate binding site [chemical binding]; other site 644282002421 oxyanion hole (OAH) forming residues; other site 644282002422 trimer interface [polypeptide binding]; other site 644282002423 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; cl15762 644282002424 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282002425 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 644282002426 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 644282002427 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 644282002428 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644282002429 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644282002430 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 644282002431 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 644282002432 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282002433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002434 active site 644282002435 phosphorylation site [posttranslational modification] 644282002436 intermolecular recognition site; other site 644282002437 dimerization interface [polypeptide binding]; other site 644282002438 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644282002439 NMT1-like family; Region: NMT1_2; pfam13379 644282002440 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 644282002441 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 644282002442 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 644282002443 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 644282002444 PAS fold; Region: PAS_4; pfam08448 644282002445 putative active site [active] 644282002446 heme pocket [chemical binding]; other site 644282002447 PAS domain S-box; Region: sensory_box; TIGR00229 644282002448 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 644282002449 putative active site [active] 644282002450 heme pocket [chemical binding]; other site 644282002451 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 644282002452 PAS fold; Region: PAS_3; pfam08447 644282002453 putative active site [active] 644282002454 heme pocket [chemical binding]; other site 644282002455 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 644282002456 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 644282002457 CoA binding domain; Region: CoA_binding_2; pfam13380 644282002458 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 644282002459 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 644282002460 Isochorismatase family; Region: Isochorismatase; pfam00857 644282002461 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 644282002462 catalytic triad [active] 644282002463 dimer interface [polypeptide binding]; other site 644282002464 conserved cis-peptide bond; other site 644282002465 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644282002466 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 644282002467 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282002468 dimer interface [polypeptide binding]; other site 644282002469 putative CheW interface [polypeptide binding]; other site 644282002470 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 644282002471 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 644282002472 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 644282002473 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282002474 catalytic residue [active] 644282002475 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 644282002476 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 644282002477 trimerization site [polypeptide binding]; other site 644282002478 active site 644282002479 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 644282002480 NifU-like domain; Region: NifU; cl00484 644282002481 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644282002482 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 644282002483 dimer interface [polypeptide binding]; other site 644282002484 substrate binding site [chemical binding]; other site 644282002485 metal binding site [ion binding]; metal-binding site 644282002486 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 644282002487 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 644282002488 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 644282002489 non-specific DNA binding site [nucleotide binding]; other site 644282002490 salt bridge; other site 644282002491 sequence-specific DNA binding site [nucleotide binding]; other site 644282002492 Cupin domain; Region: Cupin_2; pfam07883 644282002493 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 644282002494 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 644282002495 active site 644282002496 FMN binding site [chemical binding]; other site 644282002497 substrate binding site [chemical binding]; other site 644282002498 3Fe-4S cluster binding site [ion binding]; other site 644282002499 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 644282002500 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282002501 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282002502 Domain of unknown function DUF21; Region: DUF21; pfam01595 644282002503 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 644282002504 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 644282002505 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 644282002506 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 644282002507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002508 NAD(P) binding site [chemical binding]; other site 644282002509 active site 644282002510 Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]; Region: NrdD; COG1328 644282002511 ATP cone domain; Region: ATP-cone; pfam03477 644282002512 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 644282002513 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 644282002514 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 644282002515 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 644282002516 FeS/SAM binding site; other site 644282002517 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 644282002518 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 644282002519 motif II; other site 644282002520 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 644282002521 putative MPT binding site; other site 644282002522 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 644282002523 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 644282002524 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 644282002525 S-adenosylmethionine binding site [chemical binding]; other site 644282002526 Uncharacterized conserved protein [Function unknown]; Region: COG0398 644282002527 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 644282002528 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 644282002529 active site 644282002530 ADP/pyrophosphate binding site [chemical binding]; other site 644282002531 allosteric effector site; other site 644282002532 dimerization interface [polypeptide binding]; other site 644282002533 fructose-1,6-bisphosphate binding site; other site 644282002534 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 644282002535 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 644282002536 active site 644282002537 metal binding site [ion binding]; metal-binding site 644282002538 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 644282002539 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282002540 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 644282002541 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 644282002542 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644282002543 putative substrate translocation pore; other site 644282002544 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282002545 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 644282002546 putative metal binding site; other site 644282002547 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 644282002548 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 644282002549 putative active site [active] 644282002550 putative metal binding site [ion binding]; other site 644282002551 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 644282002552 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 644282002553 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002554 ribonuclease III; Reviewed; Region: rnc; PRK00102 644282002555 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 644282002556 dimerization interface [polypeptide binding]; other site 644282002557 active site 644282002558 metal binding site [ion binding]; metal-binding site 644282002559 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 644282002560 dsRNA binding site [nucleotide binding]; other site 644282002561 GTPase Era; Reviewed; Region: era; PRK00089 644282002562 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 644282002563 G1 box; other site 644282002564 GTP/Mg2+ binding site [chemical binding]; other site 644282002565 Switch I region; other site 644282002566 G2 box; other site 644282002567 Switch II region; other site 644282002568 G3 box; other site 644282002569 G4 box; other site 644282002570 G5 box; other site 644282002571 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 644282002572 Predicted permeases [General function prediction only]; Region: COG0730 644282002573 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 644282002574 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282002575 catalytic residue [active] 644282002576 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 644282002577 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 644282002578 ligand binding site [chemical binding]; other site 644282002579 NAD binding site [chemical binding]; other site 644282002580 dimerization interface [polypeptide binding]; other site 644282002581 catalytic site [active] 644282002582 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 644282002583 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 644282002584 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 644282002585 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 644282002586 protein binding site [polypeptide binding]; other site 644282002587 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 644282002588 protein binding site [polypeptide binding]; other site 644282002589 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 644282002590 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 644282002591 regulatory protein SpoVG; Reviewed; Region: PRK13259 644282002592 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 644282002593 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 644282002594 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282002595 active site 644282002596 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 644282002597 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 644282002598 5S rRNA interface [nucleotide binding]; other site 644282002599 CTC domain interface [polypeptide binding]; other site 644282002600 L16 interface [polypeptide binding]; other site 644282002601 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 644282002602 putative active site [active] 644282002603 catalytic residue [active] 644282002604 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 644282002605 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 644282002606 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 644282002607 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 644282002608 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 644282002609 RNA binding surface [nucleotide binding]; other site 644282002610 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 644282002611 active site 644282002612 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 644282002613 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 644282002614 CoA-binding site [chemical binding]; other site 644282002615 ATP-binding [chemical binding]; other site 644282002616 transcription termination factor Rho; Provisional; Region: rho; PRK09376 644282002617 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 644282002618 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 644282002619 RNA binding site [nucleotide binding]; other site 644282002620 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 644282002621 multimer interface [polypeptide binding]; other site 644282002622 Walker A motif; other site 644282002623 ATP binding site [chemical binding]; other site 644282002624 Walker B motif; other site 644282002625 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 644282002626 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 644282002627 peptide chain release factor 1; Validated; Region: prfA; PRK00591 644282002628 This domain is found in peptide chain release factors; Region: PCRF; smart00937 644282002629 RF-1 domain; Region: RF-1; pfam00472 644282002630 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 644282002631 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 644282002632 S-adenosylmethionine binding site [chemical binding]; other site 644282002633 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 644282002634 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 644282002635 hinge; other site 644282002636 active site 644282002637 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 644282002638 rRNA interaction site [nucleotide binding]; other site 644282002639 S8 interaction site; other site 644282002640 putative laminin-1 binding site; other site 644282002641 elongation factor Ts; Reviewed; Region: tsf; PRK12332 644282002642 UBA/TS-N domain; Region: UBA; pfam00627 644282002643 Elongation factor TS; Region: EF_TS; pfam00889 644282002644 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 644282002645 putative nucleotide binding site [chemical binding]; other site 644282002646 uridine monophosphate binding site [chemical binding]; other site 644282002647 homohexameric interface [polypeptide binding]; other site 644282002648 ribosome recycling factor; Reviewed; Region: frr; PRK00083 644282002649 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 644282002650 hinge region; other site 644282002651 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 644282002652 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 644282002653 catalytic residue [active] 644282002654 putative FPP diphosphate binding site; other site 644282002655 putative FPP binding hydrophobic cleft; other site 644282002656 dimer interface [polypeptide binding]; other site 644282002657 putative IPP diphosphate binding site; other site 644282002658 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 644282002659 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 644282002660 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 644282002661 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 644282002662 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 644282002663 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 644282002664 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 644282002665 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 644282002666 active site 644282002667 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 644282002668 protein binding site [polypeptide binding]; other site 644282002669 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 644282002670 putative substrate binding region [chemical binding]; other site 644282002671 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 644282002672 Glycoprotease family; Region: Peptidase_M22; pfam00814 644282002673 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 644282002674 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 644282002675 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 644282002676 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 644282002677 2-isopropylmalate synthase; Validated; Region: PRK00915 644282002678 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 644282002679 active site 644282002680 catalytic residues [active] 644282002681 metal binding site [ion binding]; metal-binding site 644282002682 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 644282002683 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 644282002684 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 644282002685 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 644282002686 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 644282002687 S-adenosylmethionine binding site [chemical binding]; other site 644282002688 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 644282002689 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 644282002690 active site 644282002691 (T/H)XGH motif; other site 644282002692 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 644282002693 AMMECR1; Region: AMMECR1; pfam01871 644282002694 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; cd02883 644282002695 nudix motif; other site 644282002696 MOSC domain; Region: MOSC; pfam03473 644282002697 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 644282002698 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 644282002699 TilS substrate C-terminal domain; Region: TilS_C; smart00977 644282002700 FtsH Extracellular; Region: FtsH_ext; pfam06480 644282002701 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 644282002702 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 644282002703 Walker A motif; other site 644282002704 ATP binding site [chemical binding]; other site 644282002705 Walker B motif; other site 644282002706 arginine finger; other site 644282002707 Peptidase family M41; Region: Peptidase_M41; pfam01434 644282002708 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 644282002709 dihydropteroate synthase; Region: DHPS; TIGR01496 644282002710 substrate binding pocket [chemical binding]; other site 644282002711 dimer interface [polypeptide binding]; other site 644282002712 inhibitor binding site; inhibition site 644282002713 Uncharacterized conserved protein [Function unknown]; Region: COG1624 644282002714 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 644282002715 YbbR-like protein; Region: YbbR; pfam07949 644282002716 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 644282002717 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 644282002718 active site 644282002719 substrate binding site [chemical binding]; other site 644282002720 metal binding site [ion binding]; metal-binding site 644282002721 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 644282002722 nucleotide binding site [chemical binding]; other site 644282002723 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 644282002724 dimer interface [polypeptide binding]; other site 644282002725 catalytic triad [active] 644282002726 Beta-lactamase; Region: Beta-lactamase; pfam00144 644282002727 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 644282002728 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282002729 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282002730 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644282002731 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282002732 N-terminal plug; other site 644282002733 ligand-binding site [chemical binding]; other site 644282002734 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 644282002735 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 644282002736 Transcriptional regulator [Transcription]; Region: IclR; COG1414 644282002737 Bacterial transcriptional regulator; Region: IclR; pfam01614 644282002738 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 644282002739 hypothetical protein; Provisional; Region: PRK04164 644282002740 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 644282002741 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 644282002742 B12 binding site [chemical binding]; other site 644282002743 cobalt ligand [ion binding]; other site 644282002744 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 644282002745 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282002746 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 644282002747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282002748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282002749 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 644282002750 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 644282002751 FeS/SAM binding site; other site 644282002752 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 644282002753 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 644282002754 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 644282002755 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 644282002756 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 644282002757 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 644282002758 Cysteine-rich domain; Region: CCG; pfam02754 644282002759 Cysteine-rich domain; Region: CCG; pfam02754 644282002760 PAS domain; Region: PAS_9; pfam13426 644282002761 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 644282002762 PAS domain; Region: PAS_9; pfam13426 644282002763 putative active site [active] 644282002764 heme pocket [chemical binding]; other site 644282002765 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 644282002766 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282002767 Walker A motif; other site 644282002768 ATP binding site [chemical binding]; other site 644282002769 Walker B motif; other site 644282002770 arginine finger; other site 644282002771 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 644282002772 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 644282002773 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 644282002774 putative dimer interface [polypeptide binding]; other site 644282002775 [2Fe-2S] cluster binding site [ion binding]; other site 644282002776 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 644282002777 dimer interface [polypeptide binding]; other site 644282002778 [2Fe-2S] cluster binding site [ion binding]; other site 644282002779 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 644282002780 SLBB domain; Region: SLBB; pfam10531 644282002781 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 644282002782 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 644282002783 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282002784 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 644282002785 catalytic loop [active] 644282002786 iron binding site [ion binding]; other site 644282002787 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282002788 4Fe-4S binding domain; Region: Fer4; pfam00037 644282002789 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282002790 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 644282002791 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644282002792 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 644282002793 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644282002794 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 644282002795 non-specific DNA binding site [nucleotide binding]; other site 644282002796 salt bridge; other site 644282002797 sequence-specific DNA binding site [nucleotide binding]; other site 644282002798 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282002799 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282002800 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 644282002801 PAS domain S-box; Region: sensory_box; TIGR00229 644282002802 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 644282002803 putative active site [active] 644282002804 PAS domain S-box; Region: sensory_box; TIGR00229 644282002805 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 644282002806 putative active site [active] 644282002807 heme pocket [chemical binding]; other site 644282002808 PAS fold; Region: PAS_3; pfam08447 644282002809 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 644282002810 putative active site [active] 644282002811 heme pocket [chemical binding]; other site 644282002812 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 644282002813 PAS domain; Region: PAS_9; pfam13426 644282002814 putative active site [active] 644282002815 heme pocket [chemical binding]; other site 644282002816 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282002817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282002818 metal binding site [ion binding]; metal-binding site 644282002819 active site 644282002820 I-site; other site 644282002821 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 644282002822 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 644282002823 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282002824 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 644282002825 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 644282002826 salt bridge; other site 644282002827 non-specific DNA binding site [nucleotide binding]; other site 644282002828 sequence-specific DNA binding site [nucleotide binding]; other site 644282002829 Autotransporter beta-domain; Region: Autotransporter; smart00869 644282002830 Omptin family; Region: Omptin; cl01886 644282002831 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 644282002832 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 644282002833 dimer interface [polypeptide binding]; other site 644282002834 active site 644282002835 metal binding site [ion binding]; metal-binding site 644282002836 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 644282002837 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 644282002838 tetramer interface [polypeptide binding]; other site 644282002839 heme binding pocket [chemical binding]; other site 644282002840 NADPH binding site [chemical binding]; other site 644282002841 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 644282002842 metal binding site 2 [ion binding]; metal-binding site 644282002843 putative DNA binding helix; other site 644282002844 metal binding site 1 [ion binding]; metal-binding site 644282002845 dimer interface [polypeptide binding]; other site 644282002846 structural Zn2+ binding site [ion binding]; other site 644282002847 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 644282002848 CoenzymeA binding site [chemical binding]; other site 644282002849 subunit interaction site [polypeptide binding]; other site 644282002850 PHB binding site; other site 644282002851 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 644282002852 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 644282002853 ligand binding site [chemical binding]; other site 644282002854 flexible hinge region; other site 644282002855 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 644282002856 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 644282002857 metal binding triad; other site 644282002858 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 644282002859 active site 644282002860 catalytic site [active] 644282002861 substrate binding site [chemical binding]; other site 644282002862 acyl-CoA synthetase; Validated; Region: PRK08162 644282002863 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 644282002864 acyl-activating enzyme (AAE) consensus motif; other site 644282002865 putative active site [active] 644282002866 AMP binding site [chemical binding]; other site 644282002867 putative CoA binding site [chemical binding]; other site 644282002868 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 644282002869 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 644282002870 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 644282002871 active site 644282002872 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 644282002873 Phosphotransferase enzyme family; Region: APH; pfam01636 644282002874 GTP-binding protein Der; Reviewed; Region: PRK00093 644282002875 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 644282002876 G1 box; other site 644282002877 GTP/Mg2+ binding site [chemical binding]; other site 644282002878 Switch I region; other site 644282002879 G2 box; other site 644282002880 Switch II region; other site 644282002881 G3 box; other site 644282002882 G4 box; other site 644282002883 G5 box; other site 644282002884 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 644282002885 G1 box; other site 644282002886 GTP/Mg2+ binding site [chemical binding]; other site 644282002887 Switch I region; other site 644282002888 G2 box; other site 644282002889 G3 box; other site 644282002890 Switch II region; other site 644282002891 G4 box; other site 644282002892 G5 box; other site 644282002893 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 644282002894 active site 644282002895 dimer interface [polypeptide binding]; other site 644282002896 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 644282002897 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 644282002898 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 644282002899 domain interfaces; other site 644282002900 active site 644282002901 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 644282002902 active site 644282002903 SAM binding site [chemical binding]; other site 644282002904 homodimer interface [polypeptide binding]; other site 644282002905 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 644282002906 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 644282002907 active site 644282002908 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 644282002909 Part of AAA domain; Region: AAA_19; pfam13245 644282002910 Family description; Region: UvrD_C_2; pfam13538 644282002911 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 644282002912 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282002913 OstA-like protein; Region: OstA; cl00844 644282002914 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 644282002915 Organic solvent tolerance protein; Region: OstA_C; pfam04453 644282002916 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 644282002917 23S rRNA interface [nucleotide binding]; other site 644282002918 L3 interface [polypeptide binding]; other site 644282002919 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 644282002920 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 644282002921 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 644282002922 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 644282002923 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 644282002924 dimerization interface 3.5A [polypeptide binding]; other site 644282002925 active site 644282002926 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 644282002927 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 644282002928 ATP binding site [chemical binding]; other site 644282002929 Mg2+ binding site [ion binding]; other site 644282002930 G-X-G motif; other site 644282002931 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 644282002932 ATP binding site [chemical binding]; other site 644282002933 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 644282002934 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 644282002935 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 644282002936 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 644282002937 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 644282002938 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 644282002939 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 644282002940 active site 644282002941 dimer interface [polypeptide binding]; other site 644282002942 motif 1; other site 644282002943 motif 2; other site 644282002944 motif 3; other site 644282002945 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 644282002946 anticodon binding site; other site 644282002947 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 644282002948 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 644282002949 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 644282002950 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 644282002951 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 644282002952 23S rRNA binding site [nucleotide binding]; other site 644282002953 L21 binding site [polypeptide binding]; other site 644282002954 L13 binding site [polypeptide binding]; other site 644282002955 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 644282002956 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 644282002957 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 644282002958 dimer interface [polypeptide binding]; other site 644282002959 motif 1; other site 644282002960 active site 644282002961 motif 2; other site 644282002962 motif 3; other site 644282002963 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 644282002964 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 644282002965 putative tRNA-binding site [nucleotide binding]; other site 644282002966 B3/4 domain; Region: B3_4; pfam03483 644282002967 tRNA synthetase B5 domain; Region: B5; pfam03484 644282002968 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 644282002969 dimer interface [polypeptide binding]; other site 644282002970 motif 1; other site 644282002971 motif 3; other site 644282002972 motif 2; other site 644282002973 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 644282002974 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 644282002975 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282002976 DNA binding residues [nucleotide binding] 644282002977 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 644282002978 active site 644282002979 NTP binding site [chemical binding]; other site 644282002980 metal binding triad [ion binding]; metal-binding site 644282002981 antibiotic binding site [chemical binding]; other site 644282002982 Putative methyltransferase; Region: Methyltransf_16; pfam10294 644282002983 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 644282002984 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 644282002985 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 644282002986 active site 644282002987 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 644282002988 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644282002989 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 644282002990 Surface antigen; Region: Bac_surface_Ag; pfam01103 644282002991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 644282002992 Family of unknown function (DUF490); Region: DUF490; pfam04357 644282002993 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282002994 BON domain; Region: BON; pfam04972 644282002995 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644282002996 Winged helix-turn helix; Region: HTH_29; pfam13551 644282002997 Helix-turn-helix domain; Region: HTH_28; pfam13518 644282002998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 644282002999 Integrase core domain; Region: rve; pfam00665 644282003000 Integrase core domain; Region: rve_3; pfam13683 644282003001 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 644282003002 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 644282003003 active site 644282003004 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282003005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003006 active site 644282003007 phosphorylation site [posttranslational modification] 644282003008 intermolecular recognition site; other site 644282003009 dimerization interface [polypeptide binding]; other site 644282003010 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 644282003011 Walker A motif; other site 644282003012 ATP binding site [chemical binding]; other site 644282003013 Walker B motif; other site 644282003014 arginine finger; other site 644282003015 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282003016 Response regulator receiver domain; Region: Response_reg; pfam00072 644282003017 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003018 active site 644282003019 phosphorylation site [posttranslational modification] 644282003020 intermolecular recognition site; other site 644282003021 dimerization interface [polypeptide binding]; other site 644282003022 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 644282003023 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 644282003024 homodimer interface [polypeptide binding]; other site 644282003025 substrate-cofactor binding pocket; other site 644282003026 catalytic residue [active] 644282003027 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 644282003028 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 644282003029 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 644282003030 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 644282003031 GatB domain; Region: GatB_Yqey; smart00845 644282003032 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 644282003033 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 644282003034 putative substrate translocation pore; other site 644282003035 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 644282003036 Ligand Binding Site [chemical binding]; other site 644282003037 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 644282003038 Ligand Binding Site [chemical binding]; other site 644282003039 Protein of unknown function (DUF342); Region: DUF342; pfam03961 644282003040 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282003041 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 644282003042 acyl-activating enzyme (AAE) consensus motif; other site 644282003043 AMP binding site [chemical binding]; other site 644282003044 active site 644282003045 CoA binding site [chemical binding]; other site 644282003046 Pathogenicity locus; Region: Cdd1; pfam11731 644282003047 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 644282003048 LexA repressor; Validated; Region: PRK00215 644282003049 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 644282003050 Catalytic site [active] 644282003051 HDOD domain; Region: HDOD; pfam08668 644282003052 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 644282003053 CoenzymeA binding site [chemical binding]; other site 644282003054 subunit interaction site [polypeptide binding]; other site 644282003055 PHB binding site; other site 644282003056 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 644282003057 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 644282003058 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 644282003059 dimer interface [polypeptide binding]; other site 644282003060 acyl-activating enzyme (AAE) consensus motif; other site 644282003061 putative active site [active] 644282003062 AMP binding site [chemical binding]; other site 644282003063 putative CoA binding site [chemical binding]; other site 644282003064 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282003065 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003066 active site 644282003067 phosphorylation site [posttranslational modification] 644282003068 intermolecular recognition site; other site 644282003069 dimerization interface [polypeptide binding]; other site 644282003070 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 644282003071 Walker A motif; other site 644282003072 ATP binding site [chemical binding]; other site 644282003073 Walker B motif; other site 644282003074 arginine finger; other site 644282003075 PAS domain S-box; Region: sensory_box; TIGR00229 644282003076 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 644282003077 putative active site [active] 644282003078 heme pocket [chemical binding]; other site 644282003079 PAS domain S-box; Region: sensory_box; TIGR00229 644282003080 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 644282003081 putative active site [active] 644282003082 heme pocket [chemical binding]; other site 644282003083 histidine kinase; Provisional; Region: PRK13557 644282003084 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 644282003085 putative active site [active] 644282003086 heme pocket [chemical binding]; other site 644282003087 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 644282003088 dimer interface [polypeptide binding]; other site 644282003089 phosphorylation site [posttranslational modification] 644282003090 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 644282003091 ATP binding site [chemical binding]; other site 644282003092 Mg2+ binding site [ion binding]; other site 644282003093 G-X-G motif; other site 644282003094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003095 active site 644282003096 phosphorylation site [posttranslational modification] 644282003097 intermolecular recognition site; other site 644282003098 dimerization interface [polypeptide binding]; other site 644282003099 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 644282003100 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 644282003101 active site 644282003102 DNA polymerase IV; Validated; Region: PRK02406 644282003103 DNA binding site [nucleotide binding] 644282003104 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 644282003105 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 644282003106 active site 644282003107 dimerization interface [polypeptide binding]; other site 644282003108 poly(A) polymerase; Region: pcnB; TIGR01942 644282003109 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 644282003110 active site 644282003111 NTP binding site [chemical binding]; other site 644282003112 metal binding triad [ion binding]; metal-binding site 644282003113 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 644282003114 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282003115 4Fe-4S binding domain; Region: Fer4; pfam00037 644282003116 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 644282003117 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 644282003118 Walker A motif; other site 644282003119 homodimer interface [polypeptide binding]; other site 644282003120 ATP binding site [chemical binding]; other site 644282003121 hydroxycobalamin binding site [chemical binding]; other site 644282003122 Walker B motif; other site 644282003123 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 644282003124 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 644282003125 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282003126 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 644282003127 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 644282003128 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282003129 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 644282003130 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 644282003131 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 644282003132 dimer interface [polypeptide binding]; other site 644282003133 motif 1; other site 644282003134 active site 644282003135 motif 2; other site 644282003136 motif 3; other site 644282003137 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 644282003138 anticodon binding site; other site 644282003139 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 644282003140 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 644282003141 dimer interface [polypeptide binding]; other site 644282003142 anticodon binding site; other site 644282003143 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 644282003144 homodimer interface [polypeptide binding]; other site 644282003145 motif 1; other site 644282003146 active site 644282003147 motif 2; other site 644282003148 GAD domain; Region: GAD; pfam02938 644282003149 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 644282003150 motif 3; other site 644282003151 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282003152 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 644282003153 carboxyltransferase (CT) interaction site; other site 644282003154 biotinylation site [posttranslational modification]; other site 644282003155 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 644282003156 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 644282003157 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 644282003158 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 644282003159 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 644282003160 B12 binding site [chemical binding]; other site 644282003161 cobalt ligand [ion binding]; other site 644282003162 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 644282003163 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 644282003164 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 644282003165 dimer interface [polypeptide binding]; other site 644282003166 PYR/PP interface [polypeptide binding]; other site 644282003167 TPP binding site [chemical binding]; other site 644282003168 substrate binding site [chemical binding]; other site 644282003169 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 644282003170 TPP-binding site; other site 644282003171 4Fe-4S binding domain; Region: Fer4; pfam00037 644282003172 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 644282003173 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 644282003174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 644282003175 Sm and related proteins; Region: Sm_like; cl00259 644282003176 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 644282003177 putative oligomer interface [polypeptide binding]; other site 644282003178 putative RNA binding site [nucleotide binding]; other site 644282003179 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 644282003180 NusA N-terminal domain; Region: NusA_N; pfam08529 644282003181 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 644282003182 RNA binding site [nucleotide binding]; other site 644282003183 homodimer interface [polypeptide binding]; other site 644282003184 NusA-like KH domain; Region: KH_5; pfam13184 644282003185 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 644282003186 G-X-X-G motif; other site 644282003187 Protein of unknown function (DUF448); Region: DUF448; pfam04296 644282003188 putative RNA binding cleft [nucleotide binding]; other site 644282003189 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 644282003190 translation initiation factor IF-2; Region: IF-2; TIGR00487 644282003191 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 644282003192 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 644282003193 G1 box; other site 644282003194 putative GEF interaction site [polypeptide binding]; other site 644282003195 GTP/Mg2+ binding site [chemical binding]; other site 644282003196 Switch I region; other site 644282003197 G2 box; other site 644282003198 G3 box; other site 644282003199 Switch II region; other site 644282003200 G4 box; other site 644282003201 G5 box; other site 644282003202 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 644282003203 Translation-initiation factor 2; Region: IF-2; pfam11987 644282003204 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 644282003205 Protein of unknown function (DUF503); Region: DUF503; pfam04456 644282003206 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 644282003207 DHH family; Region: DHH; pfam01368 644282003208 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 644282003209 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 644282003210 RNA binding site [nucleotide binding]; other site 644282003211 active site 644282003212 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 644282003213 16S/18S rRNA binding site [nucleotide binding]; other site 644282003214 S13e-L30e interaction site [polypeptide binding]; other site 644282003215 25S rRNA binding site [nucleotide binding]; other site 644282003216 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 644282003217 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 644282003218 RNase E interface [polypeptide binding]; other site 644282003219 trimer interface [polypeptide binding]; other site 644282003220 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 644282003221 RNase E interface [polypeptide binding]; other site 644282003222 trimer interface [polypeptide binding]; other site 644282003223 active site 644282003224 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 644282003225 putative nucleic acid binding region [nucleotide binding]; other site 644282003226 G-X-X-G motif; other site 644282003227 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 644282003228 RNA binding site [nucleotide binding]; other site 644282003229 domain interface; other site 644282003230 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 644282003231 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 644282003232 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644282003233 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 644282003234 trimer interface [polypeptide binding]; other site 644282003235 active site 644282003236 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 644282003237 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 644282003238 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644282003239 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 644282003240 Walker A motif; other site 644282003241 ATP binding site [chemical binding]; other site 644282003242 Walker B motif; other site 644282003243 arginine finger; other site 644282003244 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 644282003245 Protein of unknown function DUF111; Region: DUF111; pfam01969 644282003246 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 644282003247 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 644282003248 putative dimer interface [polypeptide binding]; other site 644282003249 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 644282003250 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 644282003251 putative dimer interface [polypeptide binding]; other site 644282003252 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]; Region: eRF1; COG1503 644282003253 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282003254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 644282003255 active site 644282003256 phosphorylation site [posttranslational modification] 644282003257 dimerization interface [polypeptide binding]; other site 644282003258 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 644282003259 Walker A motif; other site 644282003260 ATP binding site [chemical binding]; other site 644282003261 Walker B motif; other site 644282003262 arginine finger; other site 644282003263 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 644282003264 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282003265 TPR motif; other site 644282003266 binding surface 644282003267 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 644282003268 binding surface 644282003269 TPR motif; other site 644282003270 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 644282003271 binding surface 644282003272 TPR motif; other site 644282003273 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 644282003274 binding surface 644282003275 TPR motif; other site 644282003276 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 644282003277 binding surface 644282003278 TPR motif; other site 644282003279 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282003280 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282003281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003282 active site 644282003283 phosphorylation site [posttranslational modification] 644282003284 intermolecular recognition site; other site 644282003285 dimerization interface [polypeptide binding]; other site 644282003286 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 644282003287 Walker A motif; other site 644282003288 ATP binding site [chemical binding]; other site 644282003289 Walker B motif; other site 644282003290 arginine finger; other site 644282003291 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282003292 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 644282003293 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 644282003294 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 644282003295 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644282003296 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644282003297 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 644282003298 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 644282003299 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 644282003300 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 644282003301 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 644282003302 MgtE intracellular N domain; Region: MgtE_N; cl15244 644282003303 FliG C-terminal domain; Region: FliG_C; pfam01706 644282003304 type III secretion system protein; Reviewed; Region: PRK06937 644282003305 Flagellar assembly protein FliH; Region: FliH; pfam02108 644282003306 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 644282003307 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 644282003308 Walker A motif/ATP binding site; other site 644282003309 Walker B motif; other site 644282003310 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 644282003311 Uncharacterized conserved protein [Function unknown]; Region: COG3334 644282003312 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 644282003313 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 644282003314 putative [Fe4-S4] binding site [ion binding]; other site 644282003315 putative molybdopterin cofactor binding site [chemical binding]; other site 644282003316 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 644282003317 molybdopterin cofactor binding site; other site 644282003318 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 644282003319 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 644282003320 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 644282003321 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 644282003322 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 644282003323 DNA binding site [nucleotide binding] 644282003324 catalytic residue [active] 644282003325 H2TH interface [polypeptide binding]; other site 644282003326 putative catalytic residues [active] 644282003327 turnover-facilitating residue; other site 644282003328 intercalation triad [nucleotide binding]; other site 644282003329 8OG recognition residue [nucleotide binding]; other site 644282003330 putative reading head residues; other site 644282003331 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 644282003332 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 644282003333 GAF domain; Region: GAF_3; pfam13492 644282003334 GAF domain; Region: GAF; pfam01590 644282003335 GAF domain; Region: GAF_2; pfam13185 644282003336 rod shape-determining protein MreB; Provisional; Region: PRK13927 644282003337 MreB and similar proteins; Region: MreB_like; cd10225 644282003338 nucleotide binding site [chemical binding]; other site 644282003339 Mg binding site [ion binding]; other site 644282003340 putative protofilament interaction site [polypeptide binding]; other site 644282003341 RodZ interaction site [polypeptide binding]; other site 644282003342 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 644282003343 Uncharacterized conserved protein [Function unknown]; Region: COG1872 644282003344 DivIVA protein; Region: DivIVA; pfam05103 644282003345 DivIVA domain; Region: DivI1A_domain; TIGR03544 644282003346 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 644282003347 putative active site [active] 644282003348 putative CoA binding site [chemical binding]; other site 644282003349 nudix motif; other site 644282003350 metal binding site [ion binding]; metal-binding site 644282003351 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282003352 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 644282003353 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 644282003354 Adenosylhomocysteinase; Provisional; Region: PTZ00075 644282003355 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 644282003356 homotetramer interface [polypeptide binding]; other site 644282003357 ligand binding site [chemical binding]; other site 644282003358 catalytic site [active] 644282003359 NAD binding site [chemical binding]; other site 644282003360 S-adenosylmethionine synthetase; Validated; Region: PRK05250 644282003361 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 644282003362 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 644282003363 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 644282003364 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 644282003365 tetramerization interface [polypeptide binding]; other site 644282003366 active site 644282003367 Pantoate-beta-alanine ligase; Region: PanC; cd00560 644282003368 pantoate--beta-alanine ligase; Region: panC; TIGR00018 644282003369 active site 644282003370 ATP-binding site [chemical binding]; other site 644282003371 pantoate-binding site; other site 644282003372 HXXH motif; other site 644282003373 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 644282003374 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 644282003375 S-adenosylmethionine binding site [chemical binding]; other site 644282003376 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 644282003377 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 644282003378 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 644282003379 AMP binding site [chemical binding]; other site 644282003380 metal binding site [ion binding]; metal-binding site 644282003381 active site 644282003382 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 644282003383 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 644282003384 active site 644282003385 catalytic residues [active] 644282003386 metal binding site [ion binding]; metal-binding site 644282003387 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 644282003388 aspartate kinase; Reviewed; Region: PRK06635 644282003389 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 644282003390 putative nucleotide binding site [chemical binding]; other site 644282003391 putative catalytic residues [active] 644282003392 putative Mg ion binding site [ion binding]; other site 644282003393 putative aspartate binding site [chemical binding]; other site 644282003394 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 644282003395 putative allosteric regulatory site; other site 644282003396 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 644282003397 putative allosteric regulatory residue; other site 644282003398 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 644282003399 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 644282003400 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 644282003401 putative substrate binding site [chemical binding]; other site 644282003402 putative ATP binding site [chemical binding]; other site 644282003403 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 644282003404 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 644282003405 active site 644282003406 hydrophilic channel; other site 644282003407 dimerization interface [polypeptide binding]; other site 644282003408 catalytic residues [active] 644282003409 active site lid [active] 644282003410 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 644282003411 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 644282003412 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282003413 Zn2+ binding site [ion binding]; other site 644282003414 Mg2+ binding site [ion binding]; other site 644282003415 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 644282003416 PhoH-like protein; Region: PhoH; pfam02562 644282003417 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 644282003418 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 644282003419 homodimer interface [polypeptide binding]; other site 644282003420 metal binding site [ion binding]; metal-binding site 644282003421 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 644282003422 homodimer interface [polypeptide binding]; other site 644282003423 active site 644282003424 putative chemical substrate binding site [chemical binding]; other site 644282003425 metal binding site [ion binding]; metal-binding site 644282003426 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 644282003427 heme-binding residues [chemical binding]; other site 644282003428 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 644282003429 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 644282003430 TPR motif; other site 644282003431 binding surface 644282003432 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 644282003433 binding surface 644282003434 TPR motif; other site 644282003435 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 644282003436 Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]; Region: CobB; COG1797 644282003437 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282003438 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 644282003439 catalytic triad [active] 644282003440 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 644282003441 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 644282003442 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 644282003443 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 644282003444 Tetratricopeptide repeat; Region: TPR_1; pfam00515 644282003445 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 644282003446 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 644282003447 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282003448 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 644282003449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282003450 active site 644282003451 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282003452 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282003453 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 644282003454 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 644282003455 active site 644282003456 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 644282003457 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 644282003458 DUF35 OB-fold domain; Region: DUF35; pfam01796 644282003459 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 644282003460 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 644282003461 NAD binding site [chemical binding]; other site 644282003462 homodimer interface [polypeptide binding]; other site 644282003463 homotetramer interface [polypeptide binding]; other site 644282003464 active site 644282003465 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282003466 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282003467 active site 644282003468 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 644282003469 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282003470 catalytic residue [active] 644282003471 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 644282003472 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 644282003473 catalytic residues [active] 644282003474 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 644282003475 CoenzymeA binding site [chemical binding]; other site 644282003476 subunit interaction site [polypeptide binding]; other site 644282003477 PHB binding site; other site 644282003478 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 644282003479 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 644282003480 homodimer interface [polypeptide binding]; other site 644282003481 oligonucleotide binding site [chemical binding]; other site 644282003482 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 644282003483 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282003484 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 644282003485 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 644282003486 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 644282003487 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282003488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644282003489 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 644282003490 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644282003491 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282003492 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 644282003493 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 644282003494 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 644282003495 Cysteine-rich domain; Region: CCG; pfam02754 644282003496 Cysteine-rich domain; Region: CCG; pfam02754 644282003497 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 644282003498 SEC-C motif; Region: SEC-C; pfam02810 644282003499 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003500 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 644282003501 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282003502 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 644282003503 active site 644282003504 TPR repeat; Region: TPR_11; pfam13414 644282003505 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 644282003506 binding surface 644282003507 TPR motif; other site 644282003508 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282003509 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 644282003510 binding surface 644282003511 TPR motif; other site 644282003512 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 644282003513 TPR repeat; Region: TPR_11; pfam13414 644282003514 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 644282003515 binding surface 644282003516 TPR motif; other site 644282003517 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282003518 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 644282003519 active site 644282003520 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 644282003521 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003522 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282003523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003524 NAD(P) binding site [chemical binding]; other site 644282003525 active site 644282003526 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644282003527 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 644282003528 Probable Catalytic site; other site 644282003529 metal-binding site 644282003530 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282003531 dimer interface [polypeptide binding]; other site 644282003532 putative CheW interface [polypeptide binding]; other site 644282003533 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 644282003534 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 644282003535 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 644282003536 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 644282003537 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282003538 AAA domain; Region: AAA_23; pfam13476 644282003539 Walker A/P-loop; other site 644282003540 ATP binding site [chemical binding]; other site 644282003541 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 644282003542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 644282003543 ABC transporter signature motif; other site 644282003544 Walker B; other site 644282003545 D-loop; other site 644282003546 H-loop/switch region; other site 644282003547 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282003548 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 644282003549 putative active site [active] 644282003550 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282003551 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 644282003552 active site 644282003553 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003554 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 644282003555 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644282003556 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 644282003557 Probable Catalytic site; other site 644282003558 metal-binding site 644282003559 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 644282003560 binding surface 644282003561 TPR repeat; Region: TPR_11; pfam13414 644282003562 TPR motif; other site 644282003563 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 644282003564 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003565 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 644282003566 substrate binding pocket [chemical binding]; other site 644282003567 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 644282003568 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282003569 Zn2+ binding site [ion binding]; other site 644282003570 Mg2+ binding site [ion binding]; other site 644282003571 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 644282003572 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644282003573 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 644282003574 Walker A/P-loop; other site 644282003575 ATP binding site [chemical binding]; other site 644282003576 Q-loop/lid; other site 644282003577 ABC transporter signature motif; other site 644282003578 Walker B; other site 644282003579 D-loop; other site 644282003580 H-loop/switch region; other site 644282003581 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 644282003582 TM-ABC transporter signature motif; other site 644282003583 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 644282003584 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 644282003585 TM-ABC transporter signature motif; other site 644282003586 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282003587 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 644282003588 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282003589 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644282003590 Walker A/P-loop; other site 644282003591 ATP binding site [chemical binding]; other site 644282003592 Q-loop/lid; other site 644282003593 ABC transporter signature motif; other site 644282003594 Walker B; other site 644282003595 D-loop; other site 644282003596 H-loop/switch region; other site 644282003597 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 644282003598 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282003599 acyl-activating enzyme (AAE) consensus motif; other site 644282003600 AMP binding site [chemical binding]; other site 644282003601 active site 644282003602 CoA binding site [chemical binding]; other site 644282003603 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 644282003604 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003605 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 644282003606 Methyltransferase domain; Region: Methyltransf_23; pfam13489 644282003607 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 644282003608 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 644282003609 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 644282003610 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 644282003611 NAD(P) binding site [chemical binding]; other site 644282003612 homodimer interface [polypeptide binding]; other site 644282003613 substrate binding site [chemical binding]; other site 644282003614 active site 644282003615 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 644282003616 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 644282003617 active site 644282003618 catalytic tetrad [active] 644282003619 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 644282003620 ligand binding site; other site 644282003621 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 644282003622 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 644282003623 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282003624 catalytic residue [active] 644282003625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003626 NAD(P) binding site [chemical binding]; other site 644282003627 active site 644282003628 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 644282003629 NeuB family; Region: NeuB; pfam03102 644282003630 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 644282003631 NeuB binding interface [polypeptide binding]; other site 644282003632 putative substrate binding site [chemical binding]; other site 644282003633 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282003634 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644282003635 Ligand binding site; other site 644282003636 Putative Catalytic site; other site 644282003637 DXD motif; other site 644282003638 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 644282003639 S-adenosylmethionine binding site [chemical binding]; other site 644282003640 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 644282003641 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 644282003642 trimer interface [polypeptide binding]; other site 644282003643 active site 644282003644 substrate binding site [chemical binding]; other site 644282003645 CoA binding site [chemical binding]; other site 644282003646 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 644282003647 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282003648 FeS/SAM binding site; other site 644282003649 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282003650 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 644282003651 active site 644282003652 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 644282003653 B12 binding site [chemical binding]; other site 644282003654 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282003655 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 644282003656 FeS/SAM binding site; other site 644282003657 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282003658 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 644282003659 substrate binding site [chemical binding]; other site 644282003660 oxyanion hole (OAH) forming residues; other site 644282003661 trimer interface [polypeptide binding]; other site 644282003662 2-oxoacid:acceptor oxidoreductase, beta subunit, pyruvate/2-ketoisovalerate family; Region: PorB_KorB; TIGR02177 644282003663 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 644282003664 TPP-binding site [chemical binding]; other site 644282003665 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 644282003666 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 644282003667 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 644282003668 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 644282003669 dimer interface [polypeptide binding]; other site 644282003670 PYR/PP interface [polypeptide binding]; other site 644282003671 TPP binding site [chemical binding]; other site 644282003672 substrate binding site [chemical binding]; other site 644282003673 intracellular protease, PfpI family; Region: PfpI; TIGR01382 644282003674 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 644282003675 proposed catalytic triad [active] 644282003676 conserved cys residue [active] 644282003677 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 644282003678 putative active site pocket [active] 644282003679 dimerization interface [polypeptide binding]; other site 644282003680 putative catalytic residue [active] 644282003681 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 644282003682 S-adenosylmethionine binding site [chemical binding]; other site 644282003683 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 644282003684 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 644282003685 active site 644282003686 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 644282003687 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 644282003688 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 644282003689 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282003690 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 644282003691 FeS/SAM binding site; other site 644282003692 Methyltransferase domain; Region: Methyltransf_24; pfam13578 644282003693 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 644282003694 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; cl08267 644282003695 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282003696 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 644282003697 S-adenosylmethionine binding site [chemical binding]; other site 644282003698 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003699 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 644282003700 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 644282003701 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 644282003702 Probable Catalytic site; other site 644282003703 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 644282003704 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 644282003705 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282003706 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 644282003707 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282003708 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282003709 peptide chain release factor 2; Validated; Region: prfB; PRK00578 644282003710 This domain is found in peptide chain release factors; Region: PCRF; smart00937 644282003711 RF-1 domain; Region: RF-1; pfam00472 644282003712 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 644282003713 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 644282003714 putative active site [active] 644282003715 catalytic triad [active] 644282003716 putative dimer interface [polypeptide binding]; other site 644282003717 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 644282003718 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 644282003719 Transporter associated domain; Region: CorC_HlyC; smart01091 644282003720 Response regulator receiver domain; Region: Response_reg; pfam00072 644282003721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003722 active site 644282003723 phosphorylation site [posttranslational modification] 644282003724 intermolecular recognition site; other site 644282003725 dimerization interface [polypeptide binding]; other site 644282003726 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 644282003727 putative active site pocket [active] 644282003728 cleavage site 644282003729 PBP superfamily domain; Region: PBP_like_2; cl17296 644282003730 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 644282003731 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282003732 dimer interface [polypeptide binding]; other site 644282003733 conserved gate region; other site 644282003734 putative PBP binding loops; other site 644282003735 ABC-ATPase subunit interface; other site 644282003736 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 644282003737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282003738 dimer interface [polypeptide binding]; other site 644282003739 conserved gate region; other site 644282003740 putative PBP binding loops; other site 644282003741 ABC-ATPase subunit interface; other site 644282003742 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 644282003743 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 644282003744 Walker A/P-loop; other site 644282003745 ATP binding site [chemical binding]; other site 644282003746 Q-loop/lid; other site 644282003747 ABC transporter signature motif; other site 644282003748 Walker B; other site 644282003749 D-loop; other site 644282003750 H-loop/switch region; other site 644282003751 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 644282003752 PhoU domain; Region: PhoU; pfam01895 644282003753 PhoU domain; Region: PhoU; pfam01895 644282003754 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 644282003755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003756 active site 644282003757 phosphorylation site [posttranslational modification] 644282003758 intermolecular recognition site; other site 644282003759 dimerization interface [polypeptide binding]; other site 644282003760 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 644282003761 DNA binding site [nucleotide binding] 644282003762 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 644282003763 dimerization interface [polypeptide binding]; other site 644282003764 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282003765 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 644282003766 putative active site [active] 644282003767 heme pocket [chemical binding]; other site 644282003768 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 644282003769 dimer interface [polypeptide binding]; other site 644282003770 phosphorylation site [posttranslational modification] 644282003771 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 644282003772 ATP binding site [chemical binding]; other site 644282003773 Mg2+ binding site [ion binding]; other site 644282003774 G-X-G motif; other site 644282003775 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 644282003776 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 644282003777 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 644282003778 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 644282003779 Preprotein translocase subunit; Region: YajC; pfam02699 644282003780 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 644282003781 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 644282003782 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 644282003783 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 644282003784 Protein export membrane protein; Region: SecD_SecF; pfam02355 644282003785 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644282003786 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 644282003787 P-loop; other site 644282003788 Magnesium ion binding site [ion binding]; other site 644282003789 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 644282003790 Magnesium ion binding site [ion binding]; other site 644282003791 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 644282003792 ParB-like nuclease domain; Region: ParB; smart00470 644282003793 YacP-like NYN domain; Region: NYN_YacP; cl01491 644282003794 Response regulator receiver domain; Region: Response_reg; pfam00072 644282003795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003796 active site 644282003797 phosphorylation site [posttranslational modification] 644282003798 intermolecular recognition site; other site 644282003799 dimerization interface [polypeptide binding]; other site 644282003800 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 644282003801 phosphorylation site [posttranslational modification] 644282003802 dimer interface [polypeptide binding]; other site 644282003803 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 644282003804 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 644282003805 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 644282003806 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282003807 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 644282003808 Ion channel; Region: Ion_trans_2; pfam07885 644282003809 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282003810 TrkA-N domain; Region: TrkA_N; pfam02254 644282003811 TrkA-C domain; Region: TrkA_C; pfam02080 644282003812 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 644282003813 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282003814 active site 644282003815 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 644282003816 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 644282003817 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 644282003818 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 644282003819 L-aspartate oxidase; Provisional; Region: PRK06175 644282003820 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 644282003821 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 644282003822 Iron-sulfur protein interface; other site 644282003823 proximal heme binding site [chemical binding]; other site 644282003824 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 644282003825 Iron-sulfur protein interface; other site 644282003826 proximal heme binding site [chemical binding]; other site 644282003827 Fumarase C-terminus; Region: Fumerase_C; cl00795 644282003828 fumarate hydratase; Provisional; Region: PRK06246 644282003829 Protein of unknown function (DUF493); Region: DUF493; pfam04359 644282003830 Patatin-like phospholipase; Region: Patatin; pfam01734 644282003831 active site 644282003832 nucleophile elbow; other site 644282003833 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 644282003834 enoyl-CoA hydratase; Provisional; Region: PRK06142 644282003835 substrate binding site [chemical binding]; other site 644282003836 oxyanion hole (OAH) forming residues; other site 644282003837 trimer interface [polypeptide binding]; other site 644282003838 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 644282003839 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 644282003840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282003841 homodimer interface [polypeptide binding]; other site 644282003842 catalytic residue [active] 644282003843 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282003844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003845 active site 644282003846 phosphorylation site [posttranslational modification] 644282003847 intermolecular recognition site; other site 644282003848 dimerization interface [polypeptide binding]; other site 644282003849 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 644282003850 Walker A motif; other site 644282003851 ATP binding site [chemical binding]; other site 644282003852 Walker B motif; other site 644282003853 arginine finger; other site 644282003854 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 644282003855 Zn binding site [ion binding]; other site 644282003856 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282003857 DsrE/DsrF-like family; Region: DrsE; cl00672 644282003858 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 644282003859 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 644282003860 dimer interface [polypeptide binding]; other site 644282003861 ssDNA binding site [nucleotide binding]; other site 644282003862 tetramer (dimer of dimers) interface [polypeptide binding]; other site 644282003863 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644282003864 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 644282003865 putative acyl-acceptor binding pocket; other site 644282003866 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 644282003867 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 644282003868 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 644282003869 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 644282003870 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644282003871 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644282003872 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644282003873 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282003874 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 644282003875 CoA binding domain; Region: CoA_binding_2; pfam13380 644282003876 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 644282003877 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 644282003878 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 644282003879 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 644282003880 classical (c) SDRs; Region: SDR_c; cd05233 644282003881 NAD(P) binding site [chemical binding]; other site 644282003882 active site 644282003883 enoyl-CoA hydratase; Provisional; Region: PRK07658 644282003884 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 644282003885 substrate binding site [chemical binding]; other site 644282003886 oxyanion hole (OAH) forming residues; other site 644282003887 trimer interface [polypeptide binding]; other site 644282003888 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 644282003889 putative active site [active] 644282003890 putative catalytic site [active] 644282003891 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 644282003892 CoA-transferase family III; Region: CoA_transf_3; pfam02515 644282003893 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 644282003894 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 644282003895 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 644282003896 HEAT repeats; Region: HEAT_2; pfam13646 644282003897 protein binding surface [polypeptide binding]; other site 644282003898 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282003899 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282003900 N-terminal plug; other site 644282003901 ligand-binding site [chemical binding]; other site 644282003902 Methyltransferase domain; Region: Methyltransf_23; pfam13489 644282003903 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 644282003904 S-adenosylmethionine binding site [chemical binding]; other site 644282003905 muropeptide transporter; Validated; Region: ampG; cl17669 644282003906 Helix-turn-helix domain; Region: HTH_18; pfam12833 644282003907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282003908 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644282003909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282003910 Methyltransferase domain; Region: Methyltransf_23; pfam13489 644282003911 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 644282003912 S-adenosylmethionine binding site [chemical binding]; other site 644282003913 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644282003914 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282003915 N-terminal plug; other site 644282003916 ligand-binding site [chemical binding]; other site 644282003917 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 644282003918 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 644282003919 FeS/SAM binding site; other site 644282003920 HemN C-terminal domain; Region: HemN_C; pfam06969 644282003921 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 644282003922 DNA protecting protein DprA; Region: dprA; TIGR00732 644282003923 DNA topoisomerase I; Validated; Region: PRK06599 644282003924 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 644282003925 active site 644282003926 interdomain interaction site; other site 644282003927 putative metal-binding site [ion binding]; other site 644282003928 nucleotide binding site [chemical binding]; other site 644282003929 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 644282003930 domain I; other site 644282003931 DNA binding groove [nucleotide binding] 644282003932 phosphate binding site [ion binding]; other site 644282003933 domain II; other site 644282003934 domain III; other site 644282003935 nucleotide binding site [chemical binding]; other site 644282003936 catalytic site [active] 644282003937 domain IV; other site 644282003938 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644282003939 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644282003940 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 644282003941 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644282003942 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644282003943 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282003944 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282003945 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282003946 acyl-activating enzyme (AAE) consensus motif; other site 644282003947 active site 644282003948 AMP binding site [chemical binding]; other site 644282003949 CoA binding site [chemical binding]; other site 644282003950 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 644282003951 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644282003952 DNA repair protein RadA; Provisional; Region: PRK11823 644282003953 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 644282003954 Walker A motif; other site 644282003955 ATP binding site [chemical binding]; other site 644282003956 Walker B motif; other site 644282003957 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 644282003958 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644282003959 catalytic residues [active] 644282003960 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 644282003961 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644282003962 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282003963 Tetratricopeptide repeat; Region: TPR_18; pfam13512 644282003964 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 644282003965 TPR motif; other site 644282003966 binding surface 644282003967 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 644282003968 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 644282003969 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 644282003970 motif 1; other site 644282003971 active site 644282003972 motif 2; other site 644282003973 motif 3; other site 644282003974 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 644282003975 DHHA1 domain; Region: DHHA1; pfam02272 644282003976 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 644282003977 recombinase A; Provisional; Region: recA; PRK09354 644282003978 hexamer interface [polypeptide binding]; other site 644282003979 Walker A motif; other site 644282003980 ATP binding site [chemical binding]; other site 644282003981 Walker B motif; other site 644282003982 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 644282003983 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 644282003984 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 644282003985 competence damage-inducible protein A; Provisional; Region: PRK00549 644282003986 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 644282003987 putative MPT binding site; other site 644282003988 Competence-damaged protein; Region: CinA; pfam02464 644282003989 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 644282003990 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 644282003991 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 644282003992 S-adenosylmethionine binding site [chemical binding]; other site 644282003993 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 644282003994 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 644282003995 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 644282003996 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 644282003997 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282003998 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 644282003999 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 644282004000 Nif-specific regulatory protein; Region: nifA; TIGR01817 644282004001 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644282004002 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 644282004003 Walker A motif; other site 644282004004 ATP binding site [chemical binding]; other site 644282004005 Walker B motif; other site 644282004006 arginine finger; other site 644282004007 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282004008 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 644282004009 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644282004010 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 644282004011 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 644282004012 active site 644282004013 dimer interface [polypeptide binding]; other site 644282004014 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 644282004015 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 644282004016 active site 644282004017 FMN binding site [chemical binding]; other site 644282004018 substrate binding site [chemical binding]; other site 644282004019 3Fe-4S cluster binding site [ion binding]; other site 644282004020 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 644282004021 domain interface; other site 644282004022 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 644282004023 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 644282004024 catalytic triad [active] 644282004025 NAD synthetase; Provisional; Region: PRK13981 644282004026 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 644282004027 multimer interface [polypeptide binding]; other site 644282004028 active site 644282004029 catalytic triad [active] 644282004030 protein interface 1 [polypeptide binding]; other site 644282004031 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 644282004032 homodimer interface [polypeptide binding]; other site 644282004033 NAD binding pocket [chemical binding]; other site 644282004034 ATP binding pocket [chemical binding]; other site 644282004035 Mg binding site [ion binding]; other site 644282004036 active-site loop [active] 644282004037 Repressor of nif and glnA expression [Transcription]; Region: COG1693 644282004038 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 644282004039 Domain of unknown function DUF128; Region: DUF128; pfam01995 644282004040 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004042 active site 644282004043 phosphorylation site [posttranslational modification] 644282004044 intermolecular recognition site; other site 644282004045 dimerization interface [polypeptide binding]; other site 644282004046 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 644282004047 UbiA prenyltransferase family; Region: UbiA; pfam01040 644282004048 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 644282004049 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 644282004050 PAS domain S-box; Region: sensory_box; TIGR00229 644282004051 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 644282004052 putative active site [active] 644282004053 heme pocket [chemical binding]; other site 644282004054 PAS domain S-box; Region: sensory_box; TIGR00229 644282004055 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 644282004056 putative active site [active] 644282004057 heme pocket [chemical binding]; other site 644282004058 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 644282004059 PAS fold; Region: PAS_3; pfam08447 644282004060 putative active site [active] 644282004061 heme pocket [chemical binding]; other site 644282004062 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282004063 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 644282004064 putative active site [active] 644282004065 heme pocket [chemical binding]; other site 644282004066 histidine kinase; Provisional; Region: PRK13557 644282004067 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 644282004068 putative active site [active] 644282004069 heme pocket [chemical binding]; other site 644282004070 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 644282004071 dimer interface [polypeptide binding]; other site 644282004072 phosphorylation site [posttranslational modification] 644282004073 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 644282004074 ATP binding site [chemical binding]; other site 644282004075 Mg2+ binding site [ion binding]; other site 644282004076 G-X-G motif; other site 644282004077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004078 active site 644282004079 phosphorylation site [posttranslational modification] 644282004080 intermolecular recognition site; other site 644282004081 dimerization interface [polypeptide binding]; other site 644282004082 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 644282004083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282004084 Walker A/P-loop; other site 644282004085 ATP binding site [chemical binding]; other site 644282004086 Q-loop/lid; other site 644282004087 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 644282004088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282004089 ABC transporter signature motif; other site 644282004090 Walker B; other site 644282004091 D-loop; other site 644282004092 H-loop/switch region; other site 644282004093 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 644282004094 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282004095 active site 644282004096 metal binding site [ion binding]; metal-binding site 644282004097 DNA binding site [nucleotide binding] 644282004098 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 644282004099 diaminopimelate aminotransferase; Provisional; Region: PRK13983 644282004100 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 644282004101 metal binding site [ion binding]; metal-binding site 644282004102 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 644282004103 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 644282004104 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 644282004105 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 644282004106 FMN binding site [chemical binding]; other site 644282004107 active site 644282004108 catalytic residues [active] 644282004109 substrate binding site [chemical binding]; other site 644282004110 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 644282004111 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 644282004112 FeS/SAM binding site; other site 644282004113 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282004114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282004115 metal binding site [ion binding]; metal-binding site 644282004116 active site 644282004117 I-site; other site 644282004118 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 644282004119 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 644282004120 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 644282004121 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644282004122 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282004123 active site 644282004124 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644282004125 FOG: CBS domain [General function prediction only]; Region: COG0517 644282004126 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 644282004127 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282004128 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 644282004129 MG2 domain; Region: A2M_N; pfam01835 644282004130 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 644282004131 Alpha-2-macroglobulin family; Region: A2M; pfam00207 644282004132 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; cl08267 644282004133 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 644282004134 Transglycosylase; Region: Transgly; pfam00912 644282004135 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 644282004136 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 644282004137 serine O-acetyltransferase; Region: cysE; TIGR01172 644282004138 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 644282004139 trimer interface [polypeptide binding]; other site 644282004140 active site 644282004141 substrate binding site [chemical binding]; other site 644282004142 CoA binding site [chemical binding]; other site 644282004143 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 644282004144 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 644282004145 dimer interface [polypeptide binding]; other site 644282004146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282004147 catalytic residue [active] 644282004148 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 644282004149 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 644282004150 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 644282004151 inhibitor-cofactor binding pocket; inhibition site 644282004152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282004153 catalytic residue [active] 644282004154 Restriction endonuclease; Region: Mrr_cat; pfam04471 644282004155 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 644282004156 CoA binding domain; Region: CoA_binding; smart00881 644282004157 CoA-ligase; Region: Ligase_CoA; pfam00549 644282004158 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 644282004159 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 644282004160 CoA-ligase; Region: Ligase_CoA; pfam00549 644282004161 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 644282004162 S-adenosylmethionine binding site [chemical binding]; other site 644282004163 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 644282004164 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644282004165 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644282004166 Transcriptional regulators [Transcription]; Region: MarR; COG1846 644282004167 MarR family; Region: MarR_2; pfam12802 644282004168 Isochorismatase family; Region: Isochorismatase; pfam00857 644282004169 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 644282004170 catalytic triad [active] 644282004171 conserved cis-peptide bond; other site 644282004172 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644282004173 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282004174 dimer interface [polypeptide binding]; other site 644282004175 putative CheW interface [polypeptide binding]; other site 644282004176 hypothetical protein; Provisional; Region: PRK08317 644282004177 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 644282004178 S-adenosylmethionine binding site [chemical binding]; other site 644282004179 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282004180 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 644282004181 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 644282004182 Walker A/P-loop; other site 644282004183 ATP binding site [chemical binding]; other site 644282004184 Q-loop/lid; other site 644282004185 ABC transporter signature motif; other site 644282004186 Walker B; other site 644282004187 D-loop; other site 644282004188 H-loop/switch region; other site 644282004189 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 644282004190 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 644282004191 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282004192 N-terminal plug; other site 644282004193 ligand-binding site [chemical binding]; other site 644282004194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 644282004195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282004196 Walker A/P-loop; other site 644282004197 ATP binding site [chemical binding]; other site 644282004198 ABC transporter; Region: ABC_tran; pfam00005 644282004199 Q-loop/lid; other site 644282004200 ABC transporter signature motif; other site 644282004201 Walker B; other site 644282004202 D-loop; other site 644282004203 potassium/proton antiporter; Reviewed; Region: PRK05326 644282004204 TrkA-C domain; Region: TrkA_C; pfam02080 644282004205 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 644282004206 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 644282004207 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 644282004208 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 644282004209 RNA binding surface [nucleotide binding]; other site 644282004210 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 644282004211 active site 644282004212 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 644282004213 ScpA/B protein; Region: ScpA_ScpB; cl00598 644282004214 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 644282004215 Peptidase family M50; Region: Peptidase_M50; pfam02163 644282004216 active site 644282004217 putative substrate binding region [chemical binding]; other site 644282004218 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 644282004219 DHH family; Region: DHH; pfam01368 644282004220 DHHA1 domain; Region: DHHA1; pfam02272 644282004221 FOG: CBS domain [General function prediction only]; Region: COG0517 644282004222 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 644282004223 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 644282004224 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 644282004225 active site 644282004226 NTP binding site [chemical binding]; other site 644282004227 metal binding triad [ion binding]; metal-binding site 644282004228 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 644282004229 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 644282004230 active site 644282004231 DNA binding site [nucleotide binding] 644282004232 Int/Topo IB signature motif; other site 644282004233 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 644282004234 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 644282004235 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 644282004236 active site 644282004237 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 644282004238 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282004239 Walker A motif; other site 644282004240 ATP binding site [chemical binding]; other site 644282004241 Walker B motif; other site 644282004242 arginine finger; other site 644282004243 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 644282004244 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 644282004245 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 644282004246 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282004247 dimer interface [polypeptide binding]; other site 644282004248 conserved gate region; other site 644282004249 putative PBP binding loops; other site 644282004250 ABC-ATPase subunit interface; other site 644282004251 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 644282004252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282004253 dimer interface [polypeptide binding]; other site 644282004254 conserved gate region; other site 644282004255 putative PBP binding loops; other site 644282004256 ABC-ATPase subunit interface; other site 644282004257 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 644282004258 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 644282004259 peptide binding site [polypeptide binding]; other site 644282004260 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 644282004261 putative FMN binding site [chemical binding]; other site 644282004262 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 644282004263 Flavoprotein; Region: Flavoprotein; pfam02441 644282004264 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 644282004265 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 644282004266 Fe-S cluster binding site [ion binding]; other site 644282004267 active site 644282004268 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 644282004269 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 644282004270 dimer interface [polypeptide binding]; other site 644282004271 active site residues [active] 644282004272 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 644282004273 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 644282004274 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 644282004275 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 644282004276 histidinol dehydrogenase; Region: hisD; TIGR00069 644282004277 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 644282004278 NAD binding site [chemical binding]; other site 644282004279 dimerization interface [polypeptide binding]; other site 644282004280 product binding site; other site 644282004281 substrate binding site [chemical binding]; other site 644282004282 zinc binding site [ion binding]; other site 644282004283 catalytic residues [active] 644282004284 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004286 active site 644282004287 phosphorylation site [posttranslational modification] 644282004288 intermolecular recognition site; other site 644282004289 dimerization interface [polypeptide binding]; other site 644282004290 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282004291 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 644282004292 ATP binding site [chemical binding]; other site 644282004293 Mg2+ binding site [ion binding]; other site 644282004294 G-X-G motif; other site 644282004295 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004297 active site 644282004298 phosphorylation site [posttranslational modification] 644282004299 intermolecular recognition site; other site 644282004300 dimerization interface [polypeptide binding]; other site 644282004301 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 644282004302 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 644282004303 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 644282004304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004305 active site 644282004306 phosphorylation site [posttranslational modification] 644282004307 intermolecular recognition site; other site 644282004308 dimerization interface [polypeptide binding]; other site 644282004309 CheB methylesterase; Region: CheB_methylest; pfam01339 644282004310 CheD chemotactic sensory transduction; Region: CheD; cl00810 644282004311 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 644282004312 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 644282004313 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 644282004314 S-adenosylmethionine binding site [chemical binding]; other site 644282004315 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 644282004316 putative binding surface; other site 644282004317 active site 644282004318 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 644282004319 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 644282004320 putative binding surface; other site 644282004321 active site 644282004322 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 644282004323 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644282004324 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 644282004325 ATP binding site [chemical binding]; other site 644282004326 Mg2+ binding site [ion binding]; other site 644282004327 G-X-G motif; other site 644282004328 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 644282004329 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282004330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004331 active site 644282004332 phosphorylation site [posttranslational modification] 644282004333 intermolecular recognition site; other site 644282004334 dimerization interface [polypeptide binding]; other site 644282004335 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 644282004336 anti sigma factor interaction site; other site 644282004337 regulatory phosphorylation site [posttranslational modification]; other site 644282004338 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 644282004339 anti sigma factor interaction site; other site 644282004340 regulatory phosphorylation site [posttranslational modification]; other site 644282004341 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 644282004342 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 644282004343 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282004344 ligand binding site [chemical binding]; other site 644282004345 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 644282004346 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282004347 Protein of unknown function, DUF399; Region: DUF399; cl01139 644282004348 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 644282004349 protein binding site [polypeptide binding]; other site 644282004350 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 644282004351 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282004352 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 644282004353 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 644282004354 trimer interface [polypeptide binding]; other site 644282004355 putative metal binding site [ion binding]; other site 644282004356 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 644282004357 rRNA binding site [nucleotide binding]; other site 644282004358 predicted 30S ribosome binding site; other site 644282004359 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 644282004360 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 644282004361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282004362 Zn2+ binding site [ion binding]; other site 644282004363 Mg2+ binding site [ion binding]; other site 644282004364 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 644282004365 synthetase active site [active] 644282004366 NTP binding site [chemical binding]; other site 644282004367 metal binding site [ion binding]; metal-binding site 644282004368 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 644282004369 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 644282004370 prolyl-tRNA synthetase; Provisional; Region: PRK09194 644282004371 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 644282004372 dimer interface [polypeptide binding]; other site 644282004373 motif 1; other site 644282004374 active site 644282004375 motif 2; other site 644282004376 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 644282004377 putative deacylase active site [active] 644282004378 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 644282004379 active site 644282004380 motif 3; other site 644282004381 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 644282004382 anticodon binding site; other site 644282004383 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 644282004384 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 644282004385 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 644282004386 Protein of unknown function (DUF523); Region: DUF523; pfam04463 644282004387 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 644282004388 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 644282004389 dimerization interface [polypeptide binding]; other site 644282004390 putative ATP binding site [chemical binding]; other site 644282004391 Rubrerythrin [Energy production and conversion]; Region: COG1592 644282004392 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 644282004393 binuclear metal center [ion binding]; other site 644282004394 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 644282004395 iron binding site [ion binding]; other site 644282004396 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 644282004397 dimer interface [polypeptide binding]; other site 644282004398 catalytic triad [active] 644282004399 peroxidatic and resolving cysteines [active] 644282004400 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 644282004401 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282004402 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282004403 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 644282004404 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 644282004405 putative NAD(P) binding site [chemical binding]; other site 644282004406 putative active site [active] 644282004407 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282004408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004409 active site 644282004410 phosphorylation site [posttranslational modification] 644282004411 intermolecular recognition site; other site 644282004412 dimerization interface [polypeptide binding]; other site 644282004413 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 644282004414 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 644282004415 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 644282004416 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 644282004417 NAD(P) binding site [chemical binding]; other site 644282004418 catalytic residues [active] 644282004419 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 644282004420 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 644282004421 active site 644282004422 NAD binding site [chemical binding]; other site 644282004423 metal binding site [ion binding]; metal-binding site 644282004424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644282004425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644282004426 LysR substrate binding domain; Region: LysR_substrate; pfam03466 644282004427 dimerization interface [polypeptide binding]; other site 644282004428 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 644282004429 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 644282004430 G1 box; other site 644282004431 GTP/Mg2+ binding site [chemical binding]; other site 644282004432 Switch I region; other site 644282004433 G2 box; other site 644282004434 G3 box; other site 644282004435 Switch II region; other site 644282004436 G4 box; other site 644282004437 G5 box; other site 644282004438 Nucleoside recognition; Region: Gate; pfam07670 644282004439 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 644282004440 Nucleoside recognition; Region: Gate; pfam07670 644282004441 FeoA domain; Region: FeoA; pfam04023 644282004442 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 644282004443 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 644282004444 non-specific DNA interactions [nucleotide binding]; other site 644282004445 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 644282004446 DNA binding site [nucleotide binding] 644282004447 sequence specific DNA binding site [nucleotide binding]; other site 644282004448 putative cAMP binding site [chemical binding]; other site 644282004449 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 644282004450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282004451 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 644282004452 Walker A/P-loop; other site 644282004453 ATP binding site [chemical binding]; other site 644282004454 Q-loop/lid; other site 644282004455 ABC transporter signature motif; other site 644282004456 Walker B; other site 644282004457 D-loop; other site 644282004458 H-loop/switch region; other site 644282004459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282004460 dimer interface [polypeptide binding]; other site 644282004461 conserved gate region; other site 644282004462 putative PBP binding loops; other site 644282004463 ABC-ATPase subunit interface; other site 644282004464 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 644282004465 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 644282004466 Winged helix-turn helix; Region: HTH_29; pfam13551 644282004467 Helix-turn-helix domain; Region: HTH_28; pfam13518 644282004468 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 644282004469 Integrase core domain; Region: rve; pfam00665 644282004470 Integrase core domain; Region: rve_3; pfam13683 644282004471 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 644282004472 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282004473 active site 644282004474 nucleotide binding site [chemical binding]; other site 644282004475 HIGH motif; other site 644282004476 KMSKS motif; other site 644282004477 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 644282004478 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282004479 active site 644282004480 isocitrate dehydrogenase; Validated; Region: PRK07362 644282004481 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 644282004482 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 644282004483 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 644282004484 active site 644282004485 Zn binding site [ion binding]; other site 644282004486 Yqey-like protein; Region: YqeY; pfam09424 644282004487 MutS domain III; Region: MutS_III; pfam05192 644282004488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282004489 Walker A/P-loop; other site 644282004490 ATP binding site [chemical binding]; other site 644282004491 Q-loop/lid; other site 644282004492 ABC transporter signature motif; other site 644282004493 Walker B; other site 644282004494 D-loop; other site 644282004495 H-loop/switch region; other site 644282004496 Smr domain; Region: Smr; pfam01713 644282004497 DNA primase, catalytic core; Region: dnaG; TIGR01391 644282004498 CHC2 zinc finger; Region: zf-CHC2; pfam01807 644282004499 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 644282004500 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 644282004501 active site 644282004502 metal binding site [ion binding]; metal-binding site 644282004503 interdomain interaction site; other site 644282004504 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 644282004505 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 644282004506 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 644282004507 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 644282004508 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282004509 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644282004510 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 644282004511 DNA binding residues [nucleotide binding] 644282004512 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 644282004513 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282004514 Zn2+ binding site [ion binding]; other site 644282004515 Mg2+ binding site [ion binding]; other site 644282004516 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 644282004517 Predicted permeases [General function prediction only]; Region: COG0795 644282004518 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 644282004519 Predicted permeases [General function prediction only]; Region: COG0795 644282004520 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 644282004521 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282004522 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 644282004523 FAD binding site [chemical binding]; other site 644282004524 homotetramer interface [polypeptide binding]; other site 644282004525 substrate binding pocket [chemical binding]; other site 644282004526 catalytic base [active] 644282004527 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644282004528 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 644282004529 sequence-specific DNA binding site [nucleotide binding]; other site 644282004530 salt bridge; other site 644282004531 Cupin domain; Region: Cupin_2; pfam07883 644282004532 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 644282004533 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 644282004534 Walker A; other site 644282004535 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 644282004536 G4 box; other site 644282004537 G5 box; other site 644282004538 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 644282004539 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282004540 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 644282004541 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 644282004542 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282004543 acyl-activating enzyme (AAE) consensus motif; other site 644282004544 AMP binding site [chemical binding]; other site 644282004545 active site 644282004546 CoA binding site [chemical binding]; other site 644282004547 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004549 active site 644282004550 phosphorylation site [posttranslational modification] 644282004551 intermolecular recognition site; other site 644282004552 dimerization interface [polypeptide binding]; other site 644282004553 PAS fold; Region: PAS; pfam00989 644282004554 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 644282004555 putative active site [active] 644282004556 heme pocket [chemical binding]; other site 644282004557 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644282004558 GAF domain; Region: GAF; pfam01590 644282004559 PAS domain S-box; Region: sensory_box; TIGR00229 644282004560 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 644282004561 putative active site [active] 644282004562 heme pocket [chemical binding]; other site 644282004563 PAS domain S-box; Region: sensory_box; TIGR00229 644282004564 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 644282004565 putative active site [active] 644282004566 heme pocket [chemical binding]; other site 644282004567 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 644282004568 dimer interface [polypeptide binding]; other site 644282004569 phosphorylation site [posttranslational modification] 644282004570 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 644282004571 ATP binding site [chemical binding]; other site 644282004572 Mg2+ binding site [ion binding]; other site 644282004573 G-X-G motif; other site 644282004574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004575 phosphorylation site [posttranslational modification] 644282004576 intermolecular recognition site; other site 644282004577 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004579 active site 644282004580 phosphorylation site [posttranslational modification] 644282004581 intermolecular recognition site; other site 644282004582 dimerization interface [polypeptide binding]; other site 644282004583 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282004584 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282004585 active site 644282004586 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 644282004587 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 644282004588 substrate binding site [chemical binding]; other site 644282004589 oxyanion hole (OAH) forming residues; other site 644282004590 trimer interface [polypeptide binding]; other site 644282004591 putative acyltransferase; Provisional; Region: PRK05790 644282004592 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 644282004593 dimer interface [polypeptide binding]; other site 644282004594 active site 644282004595 putative acyltransferase; Provisional; Region: PRK05790 644282004596 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 644282004597 dimer interface [polypeptide binding]; other site 644282004598 active site 644282004599 Predicted transcriptional regulator [Transcription]; Region: COG2378 644282004600 hypothetical protein; Provisional; Region: PRK04334 644282004601 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 644282004602 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282004603 active site 644282004604 metal binding site [ion binding]; metal-binding site 644282004605 homotetramer interface [polypeptide binding]; other site 644282004606 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 644282004607 nucleotide binding site/active site [active] 644282004608 HIT family signature motif; other site 644282004609 catalytic residue [active] 644282004610 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 644282004611 tetratricopeptide repeat protein; Provisional; Region: PRK11788 644282004612 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 644282004613 binding surface 644282004614 TPR motif; other site 644282004615 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 644282004616 binding surface 644282004617 TPR motif; other site 644282004618 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 644282004619 binding surface 644282004620 TPR motif; other site 644282004621 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 644282004622 MutS domain I; Region: MutS_I; pfam01624 644282004623 MutS domain II; Region: MutS_II; pfam05188 644282004624 MutS domain III; Region: MutS_III; pfam05192 644282004625 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 644282004626 Walker A/P-loop; other site 644282004627 ATP binding site [chemical binding]; other site 644282004628 Q-loop/lid; other site 644282004629 ABC transporter signature motif; other site 644282004630 Walker B; other site 644282004631 D-loop; other site 644282004632 H-loop/switch region; other site 644282004633 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 644282004634 AMIN domain; Region: AMIN; pfam11741 644282004635 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 644282004636 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 644282004637 active site 644282004638 metal binding site [ion binding]; metal-binding site 644282004639 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 644282004640 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 644282004641 putative ligand binding site [chemical binding]; other site 644282004642 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 644282004643 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 644282004644 TM-ABC transporter signature motif; other site 644282004645 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644282004646 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 644282004647 TM-ABC transporter signature motif; other site 644282004648 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644282004649 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 644282004650 Walker A/P-loop; other site 644282004651 ATP binding site [chemical binding]; other site 644282004652 Q-loop/lid; other site 644282004653 ABC transporter signature motif; other site 644282004654 Walker B; other site 644282004655 D-loop; other site 644282004656 H-loop/switch region; other site 644282004657 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282004658 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644282004659 Walker A/P-loop; other site 644282004660 ATP binding site [chemical binding]; other site 644282004661 Q-loop/lid; other site 644282004662 ABC transporter signature motif; other site 644282004663 Walker B; other site 644282004664 D-loop; other site 644282004665 H-loop/switch region; other site 644282004666 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282004667 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 644282004668 Coenzyme A binding pocket [chemical binding]; other site 644282004669 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 644282004670 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 644282004671 GDP-binding site [chemical binding]; other site 644282004672 ACT binding site; other site 644282004673 IMP binding site; other site 644282004674 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644282004675 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644282004676 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282004677 dimer interface [polypeptide binding]; other site 644282004678 putative CheW interface [polypeptide binding]; other site 644282004679 PAS fold; Region: PAS_4; pfam08448 644282004680 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 644282004681 dimer interface [polypeptide binding]; other site 644282004682 phosphorylation site [posttranslational modification] 644282004683 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 644282004684 ATP binding site [chemical binding]; other site 644282004685 Mg2+ binding site [ion binding]; other site 644282004686 G-X-G motif; other site 644282004687 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644282004688 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 644282004689 non-specific DNA binding site [nucleotide binding]; other site 644282004690 salt bridge; other site 644282004691 sequence-specific DNA binding site [nucleotide binding]; other site 644282004692 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 644282004693 Catalytic site [active] 644282004694 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 644282004695 S-adenosylmethionine binding site [chemical binding]; other site 644282004696 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 644282004697 S-adenosylmethionine binding site [chemical binding]; other site 644282004698 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 644282004699 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 644282004700 Walker A/P-loop; other site 644282004701 ATP binding site [chemical binding]; other site 644282004702 Q-loop/lid; other site 644282004703 ABC transporter signature motif; other site 644282004704 Walker B; other site 644282004705 D-loop; other site 644282004706 H-loop/switch region; other site 644282004707 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 644282004708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282004709 Walker A/P-loop; other site 644282004710 ATP binding site [chemical binding]; other site 644282004711 Q-loop/lid; other site 644282004712 ABC transporter signature motif; other site 644282004713 Walker B; other site 644282004714 D-loop; other site 644282004715 H-loop/switch region; other site 644282004716 Cobalt transport protein; Region: CbiQ; cl00463 644282004717 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 644282004718 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282004719 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282004720 N-terminal plug; other site 644282004721 ligand-binding site [chemical binding]; other site 644282004722 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644282004723 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282004724 Protein of unknown function, DUF486; Region: DUF486; cl01236 644282004725 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282004726 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 644282004727 S-adenosylmethionine binding site [chemical binding]; other site 644282004728 PAS fold; Region: PAS; pfam00989 644282004729 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 644282004730 putative active site [active] 644282004731 heme pocket [chemical binding]; other site 644282004732 GAF domain; Region: GAF_2; pfam13185 644282004733 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644282004734 PAS fold; Region: PAS; pfam00989 644282004735 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 644282004736 putative active site [active] 644282004737 heme pocket [chemical binding]; other site 644282004738 PAS domain S-box; Region: sensory_box; TIGR00229 644282004739 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 644282004740 putative active site [active] 644282004741 heme pocket [chemical binding]; other site 644282004742 PAS domain S-box; Region: sensory_box; TIGR00229 644282004743 PAS domain S-box; Region: sensory_box; TIGR00229 644282004744 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 644282004745 putative active site [active] 644282004746 heme pocket [chemical binding]; other site 644282004747 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282004748 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 644282004749 dimer interface [polypeptide binding]; other site 644282004750 phosphorylation site [posttranslational modification] 644282004751 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 644282004752 ATP binding site [chemical binding]; other site 644282004753 Mg2+ binding site [ion binding]; other site 644282004754 G-X-G motif; other site 644282004755 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004757 active site 644282004758 phosphorylation site [posttranslational modification] 644282004759 intermolecular recognition site; other site 644282004760 dimerization interface [polypeptide binding]; other site 644282004761 DsrE/DsrF-like family; Region: DrsE; pfam02635 644282004762 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 644282004763 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 644282004764 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 644282004765 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 644282004766 oligomerization interface [polypeptide binding]; other site 644282004767 active site 644282004768 metal binding site [ion binding]; metal-binding site 644282004769 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 644282004770 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 644282004771 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 644282004772 homodimer interface [polypeptide binding]; other site 644282004773 NADP binding site [chemical binding]; other site 644282004774 substrate binding site [chemical binding]; other site 644282004775 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 644282004776 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 644282004777 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 644282004778 FeS/SAM binding site; other site 644282004779 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 644282004780 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 644282004781 Ferritin-like domain; Region: Ferritin; pfam00210 644282004782 ferroxidase diiron center [ion binding]; other site 644282004783 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 644282004784 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 644282004785 M6 family metalloprotease domain; Region: M6dom_TIGR03296 644282004786 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 644282004787 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 644282004788 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 644282004789 Walker A motif; other site 644282004790 ATP binding site [chemical binding]; other site 644282004791 Walker B motif; other site 644282004792 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 644282004793 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644282004794 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644282004795 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 644282004796 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 644282004797 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 644282004798 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 644282004799 type II secretion system protein D; Region: type_II_gspD; TIGR02517 644282004800 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 644282004801 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 644282004802 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 644282004803 catalytic core [active] 644282004804 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 644282004805 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 644282004806 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282004807 CRISPR/Cas system-associated RAMP superfamily protein Csx10; Region: Csx10; cl17558 644282004808 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282004809 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 644282004810 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 644282004811 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282004812 Ectoine synthase; Region: Ectoine_synth; pfam06339 644282004813 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 644282004814 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 644282004815 inhibitor-cofactor binding pocket; inhibition site 644282004816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282004817 catalytic residue [active] 644282004818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282004819 Coenzyme A binding pocket [chemical binding]; other site 644282004820 threonine synthase; Validated; Region: PRK06260 644282004821 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 644282004822 homodimer interface [polypeptide binding]; other site 644282004823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282004824 catalytic residue [active] 644282004825 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 644282004826 CoenzymeA binding site [chemical binding]; other site 644282004827 subunit interaction site [polypeptide binding]; other site 644282004828 PHB binding site; other site 644282004829 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 644282004830 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 644282004831 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 644282004832 HWE histidine kinase; Region: HWE_HK; cl06527 644282004833 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 644282004834 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 644282004835 ATP binding site [chemical binding]; other site 644282004836 active site 644282004837 substrate binding site [chemical binding]; other site 644282004838 malate dehydrogenase; Reviewed; Region: PRK06223 644282004839 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 644282004840 NAD(P) binding site [chemical binding]; other site 644282004841 dimer interface [polypeptide binding]; other site 644282004842 tetramer (dimer of dimers) interface [polypeptide binding]; other site 644282004843 substrate binding site [chemical binding]; other site 644282004844 DHH family; Region: DHH; pfam01368 644282004845 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 644282004846 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 644282004847 active site 644282004848 catalytic residues [active] 644282004849 metal binding site [ion binding]; metal-binding site 644282004850 homodimer binding site [polypeptide binding]; other site 644282004851 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 644282004852 catalytic residues [active] 644282004853 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282004854 Cysteine-rich domain; Region: CCG; pfam02754 644282004855 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 644282004856 FAD binding domain; Region: FAD_binding_4; pfam01565 644282004857 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282004858 Cysteine-rich domain; Region: CCG; pfam02754 644282004859 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 644282004860 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 644282004861 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282004862 active site 644282004863 metal binding site [ion binding]; metal-binding site 644282004864 Catalytic domain of Protein Kinases; Region: PKc; cd00180 644282004865 active site 644282004866 ATP binding site [chemical binding]; other site 644282004867 substrate binding site [chemical binding]; other site 644282004868 activation loop (A-loop); other site 644282004869 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 644282004870 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 644282004871 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282004872 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 644282004873 propionate/acetate kinase; Provisional; Region: PRK12379 644282004874 phosphate acetyltransferase; Reviewed; Region: PRK05632 644282004875 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282004876 DRTGG domain; Region: DRTGG; pfam07085 644282004877 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 644282004878 aminotransferase; Validated; Region: PRK08175 644282004879 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 644282004880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282004881 homodimer interface [polypeptide binding]; other site 644282004882 catalytic residue [active] 644282004883 homoserine dehydrogenase; Provisional; Region: PRK06349 644282004884 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 644282004885 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 644282004886 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 644282004887 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 644282004888 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 644282004889 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 644282004890 active site 644282004891 pyruvate phosphate dikinase; Provisional; Region: PRK09279 644282004892 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 644282004893 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 644282004894 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 644282004895 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 644282004896 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 644282004897 dimer interface [polypeptide binding]; other site 644282004898 active site 644282004899 CoA binding pocket [chemical binding]; other site 644282004900 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 644282004901 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 644282004902 Moco binding site; other site 644282004903 metal coordination site [ion binding]; other site 644282004904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282004905 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 644282004906 dimerization interface [polypeptide binding]; other site 644282004907 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 644282004908 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 644282004909 Rubrerythrin [Energy production and conversion]; Region: COG1592 644282004910 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; cd00350 644282004911 iron binding site [ion binding]; other site 644282004912 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282004913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004914 active site 644282004915 phosphorylation site [posttranslational modification] 644282004916 intermolecular recognition site; other site 644282004917 dimerization interface [polypeptide binding]; other site 644282004918 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 644282004919 binding surface 644282004920 TPR motif; other site 644282004921 TPR repeat; Region: TPR_11; pfam13414 644282004922 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282004923 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 644282004924 binding surface 644282004925 TPR motif; other site 644282004926 TPR repeat; Region: TPR_11; pfam13414 644282004927 Archaea-specific editing domain of threonyl-tRNA synthetase; Region: tRNA-Thr_ED; pfam08915 644282004928 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 644282004929 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 644282004930 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 644282004931 domain interfaces; other site 644282004932 active site 644282004933 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 644282004934 S-adenosylmethionine binding site [chemical binding]; other site 644282004935 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 644282004936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282004937 Coenzyme A binding pocket [chemical binding]; other site 644282004938 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 644282004939 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 644282004940 Walker A motif; other site 644282004941 ATP binding site [chemical binding]; other site 644282004942 Walker B motif; other site 644282004943 arginine finger; other site 644282004944 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 644282004945 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 644282004946 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 644282004947 metal ion-dependent adhesion site (MIDAS); other site 644282004948 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 644282004949 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 644282004950 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 644282004951 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 644282004952 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 644282004953 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 644282004954 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 644282004955 putative substrate-binding site; other site 644282004956 nickel binding site [ion binding]; other site 644282004957 HupF/HypC family; Region: HupF_HypC; pfam01455 644282004958 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282004959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004960 active site 644282004961 phosphorylation site [posttranslational modification] 644282004962 intermolecular recognition site; other site 644282004963 dimerization interface [polypeptide binding]; other site 644282004964 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 644282004965 Walker A motif; other site 644282004966 ATP binding site [chemical binding]; other site 644282004967 Walker B motif; other site 644282004968 arginine finger; other site 644282004969 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 644282004970 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 644282004971 RNA/DNA hybrid binding site [nucleotide binding]; other site 644282004972 active site 644282004973 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 644282004974 Putative zinc ribbon domain; Region: DUF164; pfam02591 644282004975 Uncharacterized conserved protein [Function unknown]; Region: COG0327 644282004976 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 644282004977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 644282004978 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 644282004979 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 644282004980 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 644282004981 active site 644282004982 Cache domain; Region: Cache_1; pfam02743 644282004983 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282004984 dimer interface [polypeptide binding]; other site 644282004985 putative CheW interface [polypeptide binding]; other site 644282004986 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 644282004987 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 644282004988 HIGH motif; other site 644282004989 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644282004990 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 644282004991 active site 644282004992 KMSKS motif; other site 644282004993 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 644282004994 tRNA binding surface [nucleotide binding]; other site 644282004995 Lipopolysaccharide-assembly; Region: LptE; pfam04390 644282004996 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 644282004997 DNA polymerase III, delta subunit; Region: holA; TIGR01128 644282004998 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 644282004999 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 644282005000 integral membrane protein MviN; Region: mviN; TIGR01695 644282005001 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 644282005002 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 644282005003 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 644282005004 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282005005 catalytic residue [active] 644282005006 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 644282005007 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 644282005008 Putative exonuclease, RdgC; Region: RdgC; cl01122 644282005009 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 644282005010 putative active site pocket [active] 644282005011 4-fold oligomerization interface [polypeptide binding]; other site 644282005012 metal binding residues [ion binding]; metal-binding site 644282005013 3-fold/trimer interface [polypeptide binding]; other site 644282005014 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 644282005015 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 644282005016 catalytic residues [active] 644282005017 Putative Fe-S cluster; Region: FeS; cl17515 644282005018 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282005019 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 644282005020 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 644282005021 putative NAD(P) binding site [chemical binding]; other site 644282005022 putative active site [active] 644282005023 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644282005024 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 644282005025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282005026 Walker A/P-loop; other site 644282005027 ATP binding site [chemical binding]; other site 644282005028 Q-loop/lid; other site 644282005029 ABC transporter signature motif; other site 644282005030 Walker B; other site 644282005031 D-loop; other site 644282005032 H-loop/switch region; other site 644282005033 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644282005034 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644282005035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282005036 Walker A/P-loop; other site 644282005037 ATP binding site [chemical binding]; other site 644282005038 Q-loop/lid; other site 644282005039 ABC transporter signature motif; other site 644282005040 Walker B; other site 644282005041 D-loop; other site 644282005042 H-loop/switch region; other site 644282005043 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 644282005044 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644282005045 catalytic residues [active] 644282005046 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 644282005047 RNB domain; Region: RNB; pfam00773 644282005048 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 644282005049 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 644282005050 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282005051 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; cd01635 644282005052 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 644282005053 putative trimer interface [polypeptide binding]; other site 644282005054 putative CoA binding site [chemical binding]; other site 644282005055 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 644282005056 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 644282005057 substrate binding site [chemical binding]; other site 644282005058 glutamase interaction surface [polypeptide binding]; other site 644282005059 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 644282005060 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 644282005061 putative active site [active] 644282005062 oxyanion strand; other site 644282005063 catalytic triad [active] 644282005064 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 644282005065 TPR repeat; Region: TPR_11; pfam13414 644282005066 binding surface 644282005067 TPR motif; other site 644282005068 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 644282005069 binding surface 644282005070 TPR motif; other site 644282005071 TPR repeat; Region: TPR_11; pfam13414 644282005072 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 644282005073 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 644282005074 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 644282005075 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 644282005076 Uncharacterized conserved protein [Function unknown]; Region: COG1434 644282005077 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 644282005078 putative active site [active] 644282005079 V-type ATP synthase subunit E; Provisional; Region: PRK01005 644282005080 V-type ATP synthase subunit E; Provisional; Region: PRK01558 644282005081 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 644282005082 V-type ATP synthase subunit A; Provisional; Region: PRK04192 644282005083 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 644282005084 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 644282005085 Walker A motif/ATP binding site; other site 644282005086 Walker B motif; other site 644282005087 V-type ATP synthase subunit B; Provisional; Region: PRK02118 644282005088 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 644282005089 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 644282005090 Walker A motif homologous position; other site 644282005091 Walker B motif; other site 644282005092 ATP synthase subunit D; Region: ATP-synt_D; cl00613 644282005093 V-type ATP synthase subunit I; Validated; Region: PRK05771 644282005094 Heme-binding protein A (HasA); Region: HasA; pfam06438 644282005095 V-type ATP synthase subunit K; Provisional; Region: PRK09621 644282005096 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 644282005097 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282005098 trigger factor; Region: tig; TIGR00115 644282005099 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 644282005100 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 644282005101 Clp protease; Region: CLP_protease; pfam00574 644282005102 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 644282005103 oligomer interface [polypeptide binding]; other site 644282005104 active site residues [active] 644282005105 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 644282005106 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 644282005107 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 644282005108 Walker A motif; other site 644282005109 ATP binding site [chemical binding]; other site 644282005110 Walker B motif; other site 644282005111 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 644282005112 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 644282005113 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644282005114 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644282005115 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 644282005116 Walker A motif; other site 644282005117 ATP binding site [chemical binding]; other site 644282005118 Walker B motif; other site 644282005119 arginine finger; other site 644282005120 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 644282005121 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 644282005122 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 644282005123 HAMP domain; Region: HAMP; pfam00672 644282005124 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 644282005125 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 644282005126 PEGA domain; Region: PEGA; pfam08308 644282005127 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 644282005128 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644282005129 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282005130 Walker A/P-loop; other site 644282005131 ATP binding site [chemical binding]; other site 644282005132 Q-loop/lid; other site 644282005133 ABC transporter signature motif; other site 644282005134 Walker B; other site 644282005135 D-loop; other site 644282005136 H-loop/switch region; other site 644282005137 potential frameshift: common BLAST hit: gi|224367944|ref|YP_002602107.1| ABC transporter permease 644282005138 FtsX-like permease family; Region: FtsX; pfam02687 644282005139 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 644282005140 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 644282005141 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 644282005142 V-type ATP synthase subunit I; Validated; Region: PRK05771 644282005143 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 644282005144 protein binding site [polypeptide binding]; other site 644282005145 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 644282005146 Catalytic dyad [active] 644282005147 GTPase RsgA; Reviewed; Region: PRK01889 644282005148 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 644282005149 GTPase/Zn-binding domain interface [polypeptide binding]; other site 644282005150 GTP/Mg2+ binding site [chemical binding]; other site 644282005151 G4 box; other site 644282005152 G5 box; other site 644282005153 G1 box; other site 644282005154 Switch I region; other site 644282005155 G2 box; other site 644282005156 G3 box; other site 644282005157 Switch II region; other site 644282005158 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 644282005159 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 644282005160 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 644282005161 CTP synthetase; Validated; Region: pyrG; PRK05380 644282005162 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 644282005163 Catalytic site [active] 644282005164 active site 644282005165 UTP binding site [chemical binding]; other site 644282005166 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 644282005167 active site 644282005168 putative oxyanion hole; other site 644282005169 catalytic triad [active] 644282005170 FOG: CBS domain [General function prediction only]; Region: COG0517 644282005171 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 644282005172 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 644282005173 TIGR00268 family protein; Region: TIGR00268 644282005174 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 644282005175 Ligand Binding Site [chemical binding]; other site 644282005176 glycogen synthase; Provisional; Region: glgA; PRK00654 644282005177 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 644282005178 ADP-binding pocket [chemical binding]; other site 644282005179 homodimer interface [polypeptide binding]; other site 644282005180 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 644282005181 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 644282005182 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282005183 NAD-dependent deacetylase; Provisional; Region: PRK00481 644282005184 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 644282005185 NAD+ binding site [chemical binding]; other site 644282005186 substrate binding site [chemical binding]; other site 644282005187 Zn binding site [ion binding]; other site 644282005188 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 644282005189 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 644282005190 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 644282005191 PAS domain S-box; Region: sensory_box; TIGR00229 644282005192 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 644282005193 putative active site [active] 644282005194 heme pocket [chemical binding]; other site 644282005195 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282005196 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 644282005197 putative active site [active] 644282005198 heme pocket [chemical binding]; other site 644282005199 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 644282005200 dimer interface [polypeptide binding]; other site 644282005201 phosphorylation site [posttranslational modification] 644282005202 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 644282005203 ATP binding site [chemical binding]; other site 644282005204 Mg2+ binding site [ion binding]; other site 644282005205 G-X-G motif; other site 644282005206 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 644282005207 dimer interface [polypeptide binding]; other site 644282005208 Citrate synthase; Region: Citrate_synt; pfam00285 644282005209 active site 644282005210 citrylCoA binding site [chemical binding]; other site 644282005211 NADH binding [chemical binding]; other site 644282005212 cationic pore residues; other site 644282005213 oxalacetate/citrate binding site [chemical binding]; other site 644282005214 coenzyme A binding site [chemical binding]; other site 644282005215 catalytic triad [active] 644282005216 Nitronate monooxygenase; Region: NMO; pfam03060 644282005217 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 644282005218 FMN binding site [chemical binding]; other site 644282005219 substrate binding site [chemical binding]; other site 644282005220 putative catalytic residue [active] 644282005221 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 644282005222 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 644282005223 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 644282005224 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644282005225 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 644282005226 P-loop; other site 644282005227 Magnesium ion binding site [ion binding]; other site 644282005228 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 644282005229 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR_like; cd08242 644282005230 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 644282005231 putative NAD(P) binding site [chemical binding]; other site 644282005232 catalytic Zn binding site [ion binding]; other site 644282005233 structural Zn binding site [ion binding]; other site 644282005234 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 644282005235 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 644282005236 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 644282005237 putative active site [active] 644282005238 catalytic triad [active] 644282005239 putative dimer interface [polypeptide binding]; other site 644282005240 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 644282005241 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 644282005242 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282005243 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 644282005244 active site 644282005245 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 644282005246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644282005247 DNA-binding site [nucleotide binding]; DNA binding site 644282005248 FadR C-terminal domain; Region: FadR_C; pfam07840 644282005249 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 644282005250 FAD binding domain; Region: FAD_binding_4; pfam01565 644282005251 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 644282005252 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 644282005253 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 644282005254 putative N- and C-terminal domain interface [polypeptide binding]; other site 644282005255 putative active site [active] 644282005256 MgATP binding site [chemical binding]; other site 644282005257 catalytic site [active] 644282005258 metal binding site [ion binding]; metal-binding site 644282005259 putative carbohydrate binding site [chemical binding]; other site 644282005260 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 644282005261 binding surface 644282005262 TPR motif; other site 644282005263 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282005264 TPR motif; other site 644282005265 binding surface 644282005266 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 644282005267 DHH family; Region: DHH; pfam01368 644282005268 DHHA1 domain; Region: DHHA1; pfam02272 644282005269 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 644282005270 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 644282005271 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 644282005272 Catalytic site [active] 644282005273 Amidohydrolase; Region: Amidohydro_2; pfam04909 644282005274 Cache domain; Region: Cache_1; pfam02743 644282005275 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282005276 dimer interface [polypeptide binding]; other site 644282005277 putative CheW interface [polypeptide binding]; other site 644282005278 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 644282005279 dimer interface [polypeptide binding]; other site 644282005280 [2Fe-2S] cluster binding site [ion binding]; other site 644282005281 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 644282005282 SLBB domain; Region: SLBB; pfam10531 644282005283 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 644282005284 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282005285 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282005286 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 644282005287 dimer interface [polypeptide binding]; other site 644282005288 [2Fe-2S] cluster binding site [ion binding]; other site 644282005289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282005290 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 644282005291 ATP binding site [chemical binding]; other site 644282005292 Mg2+ binding site [ion binding]; other site 644282005293 G-X-G motif; other site 644282005294 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 644282005295 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 644282005296 active site 644282005297 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 644282005298 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 644282005299 4Fe-4S binding domain; Region: Fer4; pfam00037 644282005300 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 644282005301 DRTGG domain; Region: DRTGG; pfam07085 644282005302 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 644282005303 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 644282005304 ATP binding site [chemical binding]; other site 644282005305 G-X-G motif; other site 644282005306 DRTGG domain; Region: DRTGG; pfam07085 644282005307 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 644282005308 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 644282005309 putative dimer interface [polypeptide binding]; other site 644282005310 [2Fe-2S] cluster binding site [ion binding]; other site 644282005311 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 644282005312 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 644282005313 putative dimer interface [polypeptide binding]; other site 644282005314 active site pocket [active] 644282005315 putative cataytic base [active] 644282005316 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 644282005317 homotrimer interface [polypeptide binding]; other site 644282005318 Walker A motif; other site 644282005319 GTP binding site [chemical binding]; other site 644282005320 Walker B motif; other site 644282005321 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 644282005322 active site 644282005323 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 644282005324 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 644282005325 active site residue [active] 644282005326 acetyl-CoA acetyltransferase; Provisional; Region: PRK06365 644282005327 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 644282005328 active site 644282005329 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 644282005330 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 644282005331 FAD binding domain; Region: FAD_binding_4; pfam01565 644282005332 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 644282005333 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282005334 Cysteine-rich domain; Region: CCG; pfam02754 644282005335 Heavy-metal resistance; Region: Metal_resist; pfam13801 644282005336 dimer interface [polypeptide binding]; other site 644282005337 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 644282005338 dimer interface [polypeptide binding]; other site 644282005339 phosphorylation site [posttranslational modification] 644282005340 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 644282005341 ATP binding site [chemical binding]; other site 644282005342 Mg2+ binding site [ion binding]; other site 644282005343 G-X-G motif; other site 644282005344 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282005345 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005346 active site 644282005347 phosphorylation site [posttranslational modification] 644282005348 intermolecular recognition site; other site 644282005349 dimerization interface [polypeptide binding]; other site 644282005350 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 644282005351 Walker A motif; other site 644282005352 ATP binding site [chemical binding]; other site 644282005353 Walker B motif; other site 644282005354 arginine finger; other site 644282005355 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282005356 Autotransporter beta-domain; Region: Autotransporter; smart00869 644282005357 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 644282005358 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 644282005359 ligand binding site; other site 644282005360 oligomer interface; other site 644282005361 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 644282005362 dimer interface [polypeptide binding]; other site 644282005363 N-terminal domain interface [polypeptide binding]; other site 644282005364 sulfate 1 binding site; other site 644282005365 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644282005366 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282005367 N-terminal plug; other site 644282005368 ligand-binding site [chemical binding]; other site 644282005369 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282005370 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 644282005371 Domain of unknown function DUF20; Region: UPF0118; pfam01594 644282005372 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 644282005373 nitrilase; Region: PLN02798 644282005374 putative active site [active] 644282005375 catalytic triad [active] 644282005376 dimer interface [polypeptide binding]; other site 644282005377 Protein of unknown function, DUF484; Region: DUF484; cl17449 644282005378 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644282005379 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 644282005380 phosphorylation site [posttranslational modification] 644282005381 dimer interface [polypeptide binding]; other site 644282005382 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 644282005383 HIT family signature motif; other site 644282005384 catalytic residue [active] 644282005385 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 644282005386 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644282005387 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 644282005388 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 644282005389 ligand binding site [chemical binding]; other site 644282005390 flexible hinge region; other site 644282005391 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 644282005392 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 644282005393 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 644282005394 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644282005395 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282005396 active site 644282005397 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644282005398 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282005399 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005400 active site 644282005401 phosphorylation site [posttranslational modification] 644282005402 intermolecular recognition site; other site 644282005403 dimerization interface [polypeptide binding]; other site 644282005404 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 644282005405 Walker A motif; other site 644282005406 ATP binding site [chemical binding]; other site 644282005407 Walker B motif; other site 644282005408 arginine finger; other site 644282005409 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 644282005410 dimerization interface [polypeptide binding]; other site 644282005411 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282005412 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 644282005413 putative active site [active] 644282005414 heme pocket [chemical binding]; other site 644282005415 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 644282005416 dimer interface [polypeptide binding]; other site 644282005417 phosphorylation site [posttranslational modification] 644282005418 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 644282005419 ATP binding site [chemical binding]; other site 644282005420 Mg2+ binding site [ion binding]; other site 644282005421 G-X-G motif; other site 644282005422 Response regulator receiver domain; Region: Response_reg; pfam00072 644282005423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005424 active site 644282005425 phosphorylation site [posttranslational modification] 644282005426 intermolecular recognition site; other site 644282005427 dimerization interface [polypeptide binding]; other site 644282005428 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282005429 TrkA-N domain; Region: TrkA_N; pfam02254 644282005430 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282005431 TrkA-N domain; Region: TrkA_N; pfam02254 644282005432 TrkA-C domain; Region: TrkA_C; pfam02080 644282005433 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 644282005434 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 644282005435 thiolase; Provisional; Region: PRK06158 644282005436 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 644282005437 active site 644282005438 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 644282005439 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 644282005440 DUF35 OB-fold domain; Region: DUF35; pfam01796 644282005441 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 644282005442 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 644282005443 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 644282005444 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644282005445 putative substrate translocation pore; other site 644282005446 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 644282005447 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 644282005448 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 644282005449 Baseplate J-like protein; Region: Baseplate_J; pfam04865 644282005450 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 644282005451 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 644282005452 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 644282005453 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 644282005454 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 644282005455 membrane protein P6; Region: PHA01399 644282005456 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 644282005457 Phage tail tube protein FII; Region: Phage_tube; cl01390 644282005458 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 644282005459 Domain of unknown function (DUF1834); Region: DUF1834; cl02087 644282005460 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 644282005461 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 644282005462 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 644282005463 Transposase; Region: HTH_Tnp_1; cl17663 644282005464 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 644282005465 Terminase-like family; Region: Terminase_6; pfam03237 644282005466 Protein of unknown function (DUF935); Region: DUF935; pfam06074 644282005467 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 644282005468 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 644282005469 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 644282005470 DNA methylase; Region: N6_N4_Mtase; cl17433 644282005471 DNA methylase; Region: N6_N4_Mtase; pfam01555 644282005472 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 644282005473 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 644282005474 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 644282005475 IHF - DNA interface [nucleotide binding]; other site 644282005476 IHF dimer interface [polypeptide binding]; other site 644282005477 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; pfam07352 644282005478 AAA domain; Region: AAA_22; pfam13401 644282005479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282005480 ABC transporter signature motif; other site 644282005481 Walker B; other site 644282005482 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 644282005483 Integrase core domain; Region: rve; pfam00665 644282005484 Immunoglobulin domain; Region: Ig; cl11960 644282005485 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 644282005486 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644282005487 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 644282005488 non-specific DNA binding site [nucleotide binding]; other site 644282005489 salt bridge; other site 644282005490 sequence-specific DNA binding site [nucleotide binding]; other site 644282005491 Predicted transcriptional regulator [Transcription]; Region: COG2932 644282005492 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 644282005493 Catalytic site [active] 644282005494 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 644282005495 PAS domain; Region: PAS_9; pfam13426 644282005496 putative active site [active] 644282005497 heme pocket [chemical binding]; other site 644282005498 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 644282005499 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 644282005500 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 644282005501 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 644282005502 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644282005503 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644282005504 ABC transporter; Region: ABC_tran_2; pfam12848 644282005505 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644282005506 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 644282005507 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 644282005508 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 644282005509 Protein of unknown function (DUF342); Region: DUF342; pfam03961 644282005510 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282005511 flagellar motor protein MotS; Reviewed; Region: PRK06925 644282005512 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 644282005513 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282005514 ligand binding site [chemical binding]; other site 644282005515 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 644282005516 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 644282005517 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644282005518 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282005519 dimer interface [polypeptide binding]; other site 644282005520 putative CheW interface [polypeptide binding]; other site 644282005521 RNA 3'-phosphate cyclase; Region: RNA_3prim_cycl; TIGR03399 644282005522 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 644282005523 putative active site [active] 644282005524 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 644282005525 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 644282005526 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 644282005527 ATP binding site [chemical binding]; other site 644282005528 putative Mg++ binding site [ion binding]; other site 644282005529 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 644282005530 nucleotide binding region [chemical binding]; other site 644282005531 ATP-binding site [chemical binding]; other site 644282005532 TRCF domain; Region: TRCF; pfam03461 644282005533 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 644282005534 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 644282005535 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644282005536 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 644282005537 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644282005538 SurA N-terminal domain; Region: SurA_N; pfam09312 644282005539 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 644282005540 SurA N-terminal domain; Region: SurA_N; pfam09312 644282005541 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 644282005542 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 644282005543 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282005544 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 644282005545 acyl-activating enzyme (AAE) consensus motif; other site 644282005546 putative AMP binding site [chemical binding]; other site 644282005547 putative active site [active] 644282005548 putative CoA binding site [chemical binding]; other site 644282005549 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 644282005550 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 644282005551 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 644282005552 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 644282005553 iron binding site [ion binding]; other site 644282005554 DsrE/DsrF-like family; Region: DrsE; pfam02635 644282005555 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 644282005556 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282005557 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 644282005558 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 644282005559 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 644282005560 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282005561 N-terminal plug; other site 644282005562 ligand-binding site [chemical binding]; other site 644282005563 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 644282005564 active site 644282005565 homodimer interface [polypeptide binding]; other site 644282005566 SAM binding site [chemical binding]; other site 644282005567 Uncharacterized subfamily of S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase_like; cd11724 644282005568 putative SAM binding site [chemical binding]; other site 644282005569 putative homodimer interface [polypeptide binding]; other site 644282005570 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282005571 L-type amino acid transporter; Region: 2A0308; TIGR00911 644282005572 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 644282005573 cobalt transport protein CbiM; Validated; Region: PRK06265 644282005574 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 644282005575 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282005576 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644282005577 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 644282005578 FtsX-like permease family; Region: FtsX; pfam02687 644282005579 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282005580 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644282005581 Walker A/P-loop; other site 644282005582 ATP binding site [chemical binding]; other site 644282005583 Q-loop/lid; other site 644282005584 ABC transporter signature motif; other site 644282005585 Walker B; other site 644282005586 D-loop; other site 644282005587 H-loop/switch region; other site 644282005588 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282005589 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644282005590 HEPN domain; Region: HEPN; cl00824 644282005591 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282005592 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 644282005593 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 644282005594 B12 binding site [chemical binding]; other site 644282005595 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 644282005596 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644282005597 DNA-binding site [nucleotide binding]; DNA binding site 644282005598 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 644282005599 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 644282005600 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 644282005601 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 644282005602 substrate binding pocket [chemical binding]; other site 644282005603 dimer interface [polypeptide binding]; other site 644282005604 inhibitor binding site; inhibition site 644282005605 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 644282005606 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 644282005607 B12 binding site [chemical binding]; other site 644282005608 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 644282005609 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 644282005610 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 644282005611 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 644282005612 catalytic loop [active] 644282005613 iron binding site [ion binding]; other site 644282005614 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282005615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005616 active site 644282005617 phosphorylation site [posttranslational modification] 644282005618 intermolecular recognition site; other site 644282005619 dimerization interface [polypeptide binding]; other site 644282005620 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 644282005621 Walker A motif; other site 644282005622 ATP binding site [chemical binding]; other site 644282005623 Walker B motif; other site 644282005624 arginine finger; other site 644282005625 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282005626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282005627 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 644282005628 ATP binding site [chemical binding]; other site 644282005629 Mg2+ binding site [ion binding]; other site 644282005630 G-X-G motif; other site 644282005631 HdeA/HdeB family; Region: HdeA; cl05752 644282005632 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 644282005633 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 644282005634 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 644282005635 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 644282005636 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 644282005637 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 644282005638 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 644282005639 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 644282005640 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 644282005641 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 644282005642 active site 644282005643 catalytic triad [active] 644282005644 oxyanion hole [active] 644282005645 Autotransporter beta-domain; Region: Autotransporter; cl17461 644282005646 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 644282005647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 644282005648 Walker A/P-loop; other site 644282005649 ATP binding site [chemical binding]; other site 644282005650 Q-loop/lid; other site 644282005651 ABC transporter signature motif; other site 644282005652 Walker B; other site 644282005653 D-loop; other site 644282005654 H-loop/switch region; other site 644282005655 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 644282005656 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 644282005657 Walker A/P-loop; other site 644282005658 ATP binding site [chemical binding]; other site 644282005659 Q-loop/lid; other site 644282005660 ABC transporter signature motif; other site 644282005661 Walker B; other site 644282005662 D-loop; other site 644282005663 H-loop/switch region; other site 644282005664 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 644282005665 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282005666 ABC-ATPase subunit interface; other site 644282005667 putative PBP binding loops; other site 644282005668 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 644282005669 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282005670 dimer interface [polypeptide binding]; other site 644282005671 conserved gate region; other site 644282005672 putative PBP binding loops; other site 644282005673 ABC-ATPase subunit interface; other site 644282005674 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 644282005675 S-adenosylmethionine binding site [chemical binding]; other site 644282005676 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 644282005677 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 644282005678 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644282005679 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282005680 N-terminal plug; other site 644282005681 ligand-binding site [chemical binding]; other site 644282005682 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 644282005683 CoA binding domain; Region: CoA_binding_2; pfam13380 644282005684 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 644282005685 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 644282005686 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644282005687 MarR family; Region: MarR_2; pfam12802 644282005688 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 644282005689 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 644282005690 ligand binding site [chemical binding]; other site 644282005691 flexible hinge region; other site 644282005692 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 644282005693 putative switch regulator; other site 644282005694 non-specific DNA interactions [nucleotide binding]; other site 644282005695 DNA binding site [nucleotide binding] 644282005696 sequence specific DNA binding site [nucleotide binding]; other site 644282005697 putative cAMP binding site [chemical binding]; other site 644282005698 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 644282005699 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 644282005700 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644282005701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282005702 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282005703 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282005704 N-terminal plug; other site 644282005705 ligand-binding site [chemical binding]; other site 644282005706 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 644282005707 S-adenosylmethionine binding site [chemical binding]; other site 644282005708 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 644282005709 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 644282005710 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644282005711 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282005712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282005713 Walker A/P-loop; other site 644282005714 ATP binding site [chemical binding]; other site 644282005715 Q-loop/lid; other site 644282005716 ABC transporter signature motif; other site 644282005717 Walker B; other site 644282005718 D-loop; other site 644282005719 H-loop/switch region; other site 644282005720 Enterobacterial virulence protein IpgD; Region: IpgD; pfam05925 644282005721 CRISPR-associated protein; Region: TIGR03986 644282005722 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 644282005723 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282005724 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282005725 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282005726 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 644282005727 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 644282005728 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 644282005729 putative active site [active] 644282005730 putative NTP binding site [chemical binding]; other site 644282005731 putative nucleic acid binding site [nucleotide binding]; other site 644282005732 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 644282005733 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 644282005734 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 644282005735 TIR domain; Region: TIR_2; pfam13676 644282005736 AAA ATPase domain; Region: AAA_16; pfam13191 644282005737 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282005738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282005739 Methyltransferase domain; Region: Methyltransf_23; pfam13489 644282005740 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 644282005741 S-adenosylmethionine binding site [chemical binding]; other site 644282005742 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 644282005743 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 644282005744 Ligand binding site [chemical binding]; other site 644282005745 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 644282005746 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 644282005747 Ligand binding site [chemical binding]; other site 644282005748 Electron transfer flavoprotein domain; Region: ETF; pfam01012 644282005749 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 644282005750 catalytic core [active] 644282005751 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282005752 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282005753 active site 644282005754 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282005755 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282005756 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 644282005757 Phosphotransferase enzyme family; Region: APH; pfam01636 644282005758 putative active site [active] 644282005759 putative substrate binding site [chemical binding]; other site 644282005760 ATP binding site [chemical binding]; other site 644282005761 Uncharacterized conserved protein [Function unknown]; Region: COG2006 644282005762 Domain of unknown function (DUF362); Region: DUF362; pfam04015 644282005763 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644282005764 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644282005765 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282005766 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282005767 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644282005768 Walker A/P-loop; other site 644282005769 ATP binding site [chemical binding]; other site 644282005770 Q-loop/lid; other site 644282005771 ABC transporter signature motif; other site 644282005772 Walker B; other site 644282005773 D-loop; other site 644282005774 H-loop/switch region; other site 644282005775 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644282005776 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 644282005777 Walker A/P-loop; other site 644282005778 ATP binding site [chemical binding]; other site 644282005779 Q-loop/lid; other site 644282005780 ABC transporter signature motif; other site 644282005781 Walker B; other site 644282005782 D-loop; other site 644282005783 H-loop/switch region; other site 644282005784 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644282005785 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 644282005786 TM-ABC transporter signature motif; other site 644282005787 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 644282005788 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 644282005789 TM-ABC transporter signature motif; other site 644282005790 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282005791 Phage capsid family; Region: Phage_capsid; pfam05065 644282005792 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 644282005793 Helix-turn-helix domain; Region: HTH_17; pfam12728 644282005794 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 644282005795 polymerase nucleotide-binding site; other site 644282005796 DNA-binding residues [nucleotide binding]; DNA binding site 644282005797 nucleotide binding site [chemical binding]; other site 644282005798 primase nucleotide-binding site [nucleotide binding]; other site 644282005799 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 644282005800 Walker A motif; other site 644282005801 ATP binding site [chemical binding]; other site 644282005802 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 644282005803 active site 644282005804 Phage Terminase; Region: Terminase_1; pfam03354 644282005805 Winged helix-turn helix; Region: HTH_29; pfam13551 644282005806 Helix-turn-helix domain; Region: HTH_28; pfam13518 644282005807 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 644282005808 Integrase core domain; Region: rve; pfam00665 644282005809 Integrase core domain; Region: rve_3; pfam13683 644282005810 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 644282005811 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 644282005812 Int/Topo IB signature motif; other site 644282005813 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 644282005814 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 644282005815 active site 644282005816 Riboflavin kinase; Region: Flavokinase; pfam01687 644282005817 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 644282005818 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 644282005819 HflX GTPase family; Region: HflX; cd01878 644282005820 G1 box; other site 644282005821 GTP/Mg2+ binding site [chemical binding]; other site 644282005822 Switch I region; other site 644282005823 G2 box; other site 644282005824 G3 box; other site 644282005825 Switch II region; other site 644282005826 G4 box; other site 644282005827 G5 box; other site 644282005828 replicative DNA helicase; Region: DnaB; TIGR00665 644282005829 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 644282005830 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 644282005831 Walker A motif; other site 644282005832 ATP binding site [chemical binding]; other site 644282005833 Walker B motif; other site 644282005834 DNA binding loops [nucleotide binding] 644282005835 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 644282005836 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 644282005837 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 644282005838 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 644282005839 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 644282005840 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 644282005841 active site 644282005842 8-oxo-dGMP binding site [chemical binding]; other site 644282005843 nudix motif; other site 644282005844 metal binding site [ion binding]; metal-binding site 644282005845 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 644282005846 binding surface 644282005847 TPR motif; other site 644282005848 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282005849 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 644282005850 TPR motif; other site 644282005851 binding surface 644282005852 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 644282005853 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282005854 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 644282005855 FeS/SAM binding site; other site 644282005856 aspartate aminotransferase; Provisional; Region: PRK06836 644282005857 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 644282005858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282005859 homodimer interface [polypeptide binding]; other site 644282005860 catalytic residue [active] 644282005861 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282005862 Zn2+ binding site [ion binding]; other site 644282005863 Mg2+ binding site [ion binding]; other site 644282005864 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 644282005865 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 644282005866 Ligand Binding Site [chemical binding]; other site 644282005867 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 644282005868 ApbE family; Region: ApbE; pfam02424 644282005869 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282005870 4Fe-4S binding domain; Region: Fer4; pfam00037 644282005871 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 644282005872 putative oxidoreductase; Provisional; Region: PRK12831 644282005873 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644282005874 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 644282005875 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 644282005876 electron transport complex RsxE subunit; Provisional; Region: PRK12405 644282005877 FMN-binding domain; Region: FMN_bind; cl01081 644282005878 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 644282005879 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 644282005880 SLBB domain; Region: SLBB; pfam10531 644282005881 4Fe-4S binding domain; Region: Fer4_6; pfam12837 644282005882 Response regulator receiver domain; Region: Response_reg; pfam00072 644282005883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005884 active site 644282005885 phosphorylation site [posttranslational modification] 644282005886 intermolecular recognition site; other site 644282005887 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282005888 dimerization interface [polypeptide binding]; other site 644282005889 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 644282005890 dimer interface [polypeptide binding]; other site 644282005891 phosphorylation site [posttranslational modification] 644282005892 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 644282005893 ATP binding site [chemical binding]; other site 644282005894 Mg2+ binding site [ion binding]; other site 644282005895 G-X-G motif; other site 644282005896 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282005897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005898 active site 644282005899 phosphorylation site [posttranslational modification] 644282005900 intermolecular recognition site; other site 644282005901 dimerization interface [polypeptide binding]; other site 644282005902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282005903 Coenzyme A binding pocket [chemical binding]; other site 644282005904 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 644282005905 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 644282005906 dimer interface [polypeptide binding]; other site 644282005907 PYR/PP interface [polypeptide binding]; other site 644282005908 TPP binding site [chemical binding]; other site 644282005909 substrate binding site [chemical binding]; other site 644282005910 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 644282005911 TPP-binding site; other site 644282005912 4Fe-4S binding domain; Region: Fer4; pfam00037 644282005913 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 644282005914 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 644282005915 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 644282005916 interchain domain interface [polypeptide binding]; other site 644282005917 heme bL binding site [chemical binding]; other site 644282005918 intrachain domain interface; other site 644282005919 heme bH binding site [chemical binding]; other site 644282005920 Qo binding site; other site 644282005921 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 644282005922 iron-sulfur cluster [ion binding]; other site 644282005923 [2Fe-2S] cluster binding site [ion binding]; other site 644282005924 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 644282005925 CPxP motif; other site 644282005926 putative inner membrane protein; Provisional; Region: PRK11099 644282005927 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 644282005928 TPR motif; other site 644282005929 binding surface 644282005930 TPR repeat; Region: TPR_11; pfam13414 644282005931 TPR repeat; Region: TPR_11; pfam13414 644282005932 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 644282005933 binding surface 644282005934 TPR motif; other site 644282005935 TPR repeat; Region: TPR_11; pfam13414 644282005936 TPR repeat; Region: TPR_11; pfam13414 644282005937 OsmC-like protein; Region: OsmC; pfam02566 644282005938 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 644282005939 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 644282005940 tetramer interfaces [polypeptide binding]; other site 644282005941 binuclear metal-binding site [ion binding]; other site 644282005942 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 644282005943 NodB motif; other site 644282005944 putative active site [active] 644282005945 putative catalytic site [active] 644282005946 Zn binding site [ion binding]; other site 644282005947 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 644282005948 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 644282005949 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 644282005950 protein binding site [polypeptide binding]; other site 644282005951 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 644282005952 Catalytic dyad [active] 644282005953 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282005954 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 644282005955 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 644282005956 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644282005957 Walker A/P-loop; other site 644282005958 ATP binding site [chemical binding]; other site 644282005959 Q-loop/lid; other site 644282005960 ABC transporter signature motif; other site 644282005961 Walker B; other site 644282005962 D-loop; other site 644282005963 H-loop/switch region; other site 644282005964 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 644282005965 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 644282005966 TPR repeat; Region: TPR_11; pfam13414 644282005967 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 644282005968 TPR motif; other site 644282005969 binding surface 644282005970 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644282005971 Ligand binding site; other site 644282005972 Putative Catalytic site; other site 644282005973 DXD motif; other site 644282005974 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 644282005975 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 644282005976 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644282005977 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 644282005978 acyl-CoA synthetase; Validated; Region: PRK06178 644282005979 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 644282005980 acyl-activating enzyme (AAE) consensus motif; other site 644282005981 putative AMP binding site [chemical binding]; other site 644282005982 putative active site [active] 644282005983 putative CoA binding site [chemical binding]; other site 644282005984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282005985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282005986 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 644282005987 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 644282005988 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 644282005989 Protein export membrane protein; Region: SecD_SecF; cl14618 644282005990 Protein export membrane protein; Region: SecD_SecF; cl14618 644282005991 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282005992 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644282005993 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282005994 PAAR motif; Region: PAAR_motif; pfam05488 644282005995 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 644282005996 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 644282005997 Peptidase M15; Region: Peptidase_M15_3; cl01194 644282005998 Phage protein D [General function prediction only]; Region: COG3500 644282005999 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 644282006000 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 644282006001 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 644282006002 Phage-related protein [Function unknown]; Region: COG5412 644282006003 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 644282006004 tail sheath protein; Provisional; Region: 18; PHA02539 644282006005 tail sheath protein; Provisional; Region: 18; PHA02539 644282006006 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282006007 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282006008 Peptidase C1-like family; Region: Peptidase_C1_2; cl17447 644282006009 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282006010 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644282006011 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282006012 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644282006013 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 644282006014 FtsX-like permease family; Region: FtsX; pfam02687 644282006015 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282006016 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644282006017 Walker A/P-loop; other site 644282006018 ATP binding site [chemical binding]; other site 644282006019 Q-loop/lid; other site 644282006020 ABC transporter signature motif; other site 644282006021 Walker B; other site 644282006022 D-loop; other site 644282006023 H-loop/switch region; other site 644282006024 Cytochrome C' Region: Cytochrom_C_2; cl01610 644282006025 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282006026 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 644282006027 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 644282006028 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 644282006029 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 644282006030 Phage portal protein; Region: Phage_portal; pfam04860 644282006031 Terminase-like family; Region: Terminase_6; pfam03237 644282006032 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 644282006033 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 644282006034 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 644282006035 active site 644282006036 DNA binding site [nucleotide binding] 644282006037 Int/Topo IB signature motif; other site 644282006038 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 644282006039 DNA primase, catalytic core; Region: dnaG; TIGR01391 644282006040 CHC2 zinc finger; Region: zf-CHC2; cl17510 644282006041 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 644282006042 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 644282006043 active site 644282006044 metal binding site [ion binding]; metal-binding site 644282006045 interdomain interaction site; other site 644282006046 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 644282006047 AAA domain; Region: AAA_30; pfam13604 644282006048 Family description; Region: UvrD_C_2; pfam13538 644282006049 ERCC4 domain; Region: ERCC4; smart00891 644282006050 Protein of unknown function (DUF669); Region: DUF669; pfam05037 644282006051 AAA domain; Region: AAA_24; pfam13479 644282006052 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 644282006053 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 644282006054 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 644282006055 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 644282006056 LexA repressor; Validated; Region: PRK00215 644282006057 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 644282006058 Catalytic site [active] 644282006059 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 644282006060 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 644282006061 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 644282006062 catalytic residues [active] 644282006063 catalytic nucleophile [active] 644282006064 Presynaptic Site I dimer interface [polypeptide binding]; other site 644282006065 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644282006066 Synaptic Flat tetramer interface [polypeptide binding]; other site 644282006067 Synaptic Site I dimer interface [polypeptide binding]; other site 644282006068 DNA binding site [nucleotide binding] 644282006069 Recombinase; Region: Recombinase; pfam07508 644282006070 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 644282006071 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 644282006072 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 644282006073 IHF - DNA interface [nucleotide binding]; other site 644282006074 IHF dimer interface [polypeptide binding]; other site 644282006075 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 644282006076 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 644282006077 Sporulation related domain; Region: SPOR; pfam05036 644282006078 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 644282006079 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644282006080 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282006081 active site 644282006082 shikimate kinase; Reviewed; Region: aroK; PRK00131 644282006083 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 644282006084 ADP binding site [chemical binding]; other site 644282006085 magnesium binding site [ion binding]; other site 644282006086 putative shikimate binding site; other site 644282006087 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 644282006088 AAA domain; Region: AAA_30; pfam13604 644282006089 Family description; Region: UvrD_C_2; pfam13538 644282006090 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 644282006091 Family description; Region: UvrD_C_2; pfam13538 644282006092 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 644282006093 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 644282006094 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 644282006095 active site 644282006096 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 644282006097 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282006098 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 644282006099 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 644282006100 active site 644282006101 Zn binding site [ion binding]; other site 644282006102 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 644282006103 SnoaL-like domain; Region: SnoaL_3; pfam13474 644282006104 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644282006105 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644282006106 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282006107 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282006108 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282006109 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 644282006110 substrate binding site [chemical binding]; other site 644282006111 oxyanion hole (OAH) forming residues; other site 644282006112 trimer interface [polypeptide binding]; other site 644282006113 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 644282006114 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 644282006115 dimer interface [polypeptide binding]; other site 644282006116 active site 644282006117 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 644282006118 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644282006119 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 644282006120 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 644282006121 motif II; other site 644282006122 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 644282006123 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 644282006124 active site 644282006125 intersubunit interactions; other site 644282006126 catalytic residue [active] 644282006127 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 644282006128 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 644282006129 catalytic center binding site [active] 644282006130 ATP binding site [chemical binding]; other site 644282006131 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 644282006132 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 644282006133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282006134 homodimer interface [polypeptide binding]; other site 644282006135 catalytic residue [active] 644282006136 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 644282006137 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 644282006138 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 644282006139 dihydrodipicolinate reductase; Provisional; Region: PRK00048 644282006140 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 644282006141 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 644282006142 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 644282006143 dihydrodipicolinate synthase; Region: dapA; TIGR00674 644282006144 dimer interface [polypeptide binding]; other site 644282006145 active site 644282006146 catalytic residue [active] 644282006147 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 644282006148 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 644282006149 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 644282006150 diaminopimelate decarboxylase; Region: lysA; TIGR01048 644282006151 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 644282006152 active site 644282006153 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644282006154 substrate binding site [chemical binding]; other site 644282006155 catalytic residues [active] 644282006156 dimer interface [polypeptide binding]; other site 644282006157 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 644282006158 Interdomain contacts; other site 644282006159 Cytokine receptor motif; other site 644282006160 argininosuccinate lyase; Provisional; Region: PRK00855 644282006161 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 644282006162 active sites [active] 644282006163 tetramer interface [polypeptide binding]; other site 644282006164 argininosuccinate synthase; Provisional; Region: PRK13820 644282006165 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 644282006166 ANP binding site [chemical binding]; other site 644282006167 Substrate Binding Site II [chemical binding]; other site 644282006168 Substrate Binding Site I [chemical binding]; other site 644282006169 ornithine carbamoyltransferase; Provisional; Region: PRK00779 644282006170 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 644282006171 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 644282006172 acetylornithine aminotransferase; Provisional; Region: PRK02627 644282006173 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 644282006174 inhibitor-cofactor binding pocket; inhibition site 644282006175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282006176 catalytic residue [active] 644282006177 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 644282006178 feedback inhibition sensing region; other site 644282006179 homohexameric interface [polypeptide binding]; other site 644282006180 nucleotide binding site [chemical binding]; other site 644282006181 N-acetyl-L-glutamate binding site [chemical binding]; other site 644282006182 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 644282006183 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 644282006184 Walker A motif; other site 644282006185 ATP binding site [chemical binding]; other site 644282006186 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 644282006187 Walker B motif; other site 644282006188 arginine finger; other site 644282006189 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 644282006190 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 644282006191 active site 644282006192 HslU subunit interaction site [polypeptide binding]; other site 644282006193 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 644282006194 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 644282006195 active site 644282006196 DNA binding site [nucleotide binding] 644282006197 Int/Topo IB signature motif; other site 644282006198 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 644282006199 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 644282006200 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 644282006201 S-adenosylmethionine binding site [chemical binding]; other site 644282006202 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 644282006203 elongation factor G; Reviewed; Region: PRK12740 644282006204 G1 box; other site 644282006205 putative GEF interaction site [polypeptide binding]; other site 644282006206 GTP/Mg2+ binding site [chemical binding]; other site 644282006207 Switch I region; other site 644282006208 G2 box; other site 644282006209 G3 box; other site 644282006210 Switch II region; other site 644282006211 G4 box; other site 644282006212 G5 box; other site 644282006213 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 644282006214 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 644282006215 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 644282006216 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 644282006217 MPT binding site; other site 644282006218 trimer interface [polypeptide binding]; other site 644282006219 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 644282006220 trimer interface [polypeptide binding]; other site 644282006221 putative Zn binding site [ion binding]; other site 644282006222 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 644282006223 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 644282006224 FMN binding site [chemical binding]; other site 644282006225 substrate binding site [chemical binding]; other site 644282006226 putative catalytic residue [active] 644282006227 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 644282006228 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 644282006229 Uncharacterized conserved protein [Function unknown]; Region: COG1656 644282006230 Protein of unknown function DUF82; Region: DUF82; pfam01927 644282006231 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 644282006232 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 644282006233 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 644282006234 binding surface 644282006235 TPR motif; other site 644282006236 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 644282006237 binding surface 644282006238 TPR motif; other site 644282006239 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 644282006240 binding surface 644282006241 TPR motif; other site 644282006242 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282006243 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 644282006244 binding surface 644282006245 TPR motif; other site 644282006246 TPR repeat; Region: TPR_11; pfam13414 644282006247 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 644282006248 TPR motif; other site 644282006249 TPR repeat; Region: TPR_11; pfam13414 644282006250 binding surface 644282006251 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 644282006252 binding surface 644282006253 TPR motif; other site 644282006254 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 644282006255 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282006256 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 644282006257 DNA binding residues [nucleotide binding] 644282006258 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644282006259 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 644282006260 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 644282006261 MgtE intracellular N domain; Region: MgtE_N; smart00924 644282006262 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 644282006263 Divalent cation transporter; Region: MgtE; pfam01769 644282006264 Recombination protein O N terminal; Region: RecO_N; pfam11967 644282006265 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 644282006266 Recombination protein O C terminal; Region: RecO_C; pfam02565 644282006267 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282006268 Domain of unknown function DUF59; Region: DUF59; pfam01883 644282006269 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 644282006270 NifU-like domain; Region: NifU; cl00484 644282006271 AMP-binding domain protein; Validated; Region: PRK07529 644282006272 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282006273 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 644282006274 acyl-activating enzyme (AAE) consensus motif; other site 644282006275 putative AMP binding site [chemical binding]; other site 644282006276 putative active site [active] 644282006277 putative CoA binding site [chemical binding]; other site 644282006278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 644282006279 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 644282006280 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 644282006281 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282006282 Walker A motif; other site 644282006283 ATP binding site [chemical binding]; other site 644282006284 Walker B motif; other site 644282006285 arginine finger; other site 644282006286 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 644282006287 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 644282006288 Na binding site [ion binding]; other site 644282006289 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 644282006290 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 644282006291 active site 644282006292 Zn binding site [ion binding]; other site 644282006293 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 644282006294 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 644282006295 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 644282006296 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 644282006297 CoenzymeA binding site [chemical binding]; other site 644282006298 subunit interaction site [polypeptide binding]; other site 644282006299 PHB binding site; other site 644282006300 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 644282006301 active site 644282006302 catalytic tetrad [active] 644282006303 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282006304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006305 active site 644282006306 phosphorylation site [posttranslational modification] 644282006307 intermolecular recognition site; other site 644282006308 dimerization interface [polypeptide binding]; other site 644282006309 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 644282006310 Walker A motif; other site 644282006311 ATP binding site [chemical binding]; other site 644282006312 Walker B motif; other site 644282006313 arginine finger; other site 644282006314 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 644282006315 dimer interface [polypeptide binding]; other site 644282006316 phosphorylation site [posttranslational modification] 644282006317 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 644282006318 ATP binding site [chemical binding]; other site 644282006319 Mg2+ binding site [ion binding]; other site 644282006320 G-X-G motif; other site 644282006321 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 644282006322 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 644282006323 active site 644282006324 dimer interface [polypeptide binding]; other site 644282006325 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 644282006326 dimer interface [polypeptide binding]; other site 644282006327 active site 644282006328 recombination factor protein RarA; Reviewed; Region: PRK13342 644282006329 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 644282006330 Walker A motif; other site 644282006331 ATP binding site [chemical binding]; other site 644282006332 Walker B motif; other site 644282006333 arginine finger; other site 644282006334 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 644282006335 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 644282006336 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 644282006337 Ribosomal protein S21; Region: Ribosomal_S21; pfam01165 644282006338 LysE type translocator; Region: LysE; cl00565 644282006339 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 644282006340 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 644282006341 oligomer interface [polypeptide binding]; other site 644282006342 putative active site [active] 644282006343 metal binding site [ion binding]; metal-binding site 644282006344 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 644282006345 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 644282006346 RNA binding surface [nucleotide binding]; other site 644282006347 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 644282006348 S-adenosylmethionine binding site [chemical binding]; other site 644282006349 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 644282006350 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 644282006351 TPP-binding site; other site 644282006352 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 644282006353 PYR/PP interface [polypeptide binding]; other site 644282006354 dimer interface [polypeptide binding]; other site 644282006355 TPP binding site [chemical binding]; other site 644282006356 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644282006357 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 644282006358 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 644282006359 substrate binding pocket [chemical binding]; other site 644282006360 chain length determination region; other site 644282006361 substrate-Mg2+ binding site; other site 644282006362 catalytic residues [active] 644282006363 aspartate-rich region 1; other site 644282006364 active site lid residues [active] 644282006365 aspartate-rich region 2; other site 644282006366 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 644282006367 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 644282006368 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282006369 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 644282006370 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 644282006371 generic binding surface II; other site 644282006372 generic binding surface I; other site 644282006373 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 644282006374 TRAM domain; Region: TRAM; pfam01938 644282006375 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 644282006376 S-adenosylmethionine binding site [chemical binding]; other site 644282006377 HDOD domain; Region: HDOD; pfam08668 644282006378 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 644282006379 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 644282006380 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 644282006381 substrate binding site [chemical binding]; other site 644282006382 ATP binding site [chemical binding]; other site 644282006383 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 644282006384 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282006385 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 644282006386 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 644282006387 minor groove reading motif; other site 644282006388 helix-hairpin-helix signature motif; other site 644282006389 substrate binding pocket [chemical binding]; other site 644282006390 active site 644282006391 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 644282006392 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 644282006393 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 644282006394 substrate binding site [chemical binding]; other site 644282006395 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 644282006396 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 644282006397 dimerization interface [polypeptide binding]; other site 644282006398 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282006399 dimer interface [polypeptide binding]; other site 644282006400 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 644282006401 putative CheW interface [polypeptide binding]; other site 644282006402 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 644282006403 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 644282006404 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282006405 Beta-Casp domain; Region: Beta-Casp; smart01027 644282006406 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 644282006407 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 644282006408 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 644282006409 FeS/SAM binding site; other site 644282006410 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 644282006411 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 644282006412 ribonuclease G; Provisional; Region: PRK11712 644282006413 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 644282006414 homodimer interface [polypeptide binding]; other site 644282006415 oligonucleotide binding site [chemical binding]; other site 644282006416 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282006417 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282006418 active site 644282006419 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282006420 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644282006421 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282006422 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644282006423 Protein export membrane protein; Region: SecD_SecF; cl14618 644282006424 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 644282006425 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 644282006426 non-specific DNA binding site [nucleotide binding]; other site 644282006427 salt bridge; other site 644282006428 sequence-specific DNA binding site [nucleotide binding]; other site 644282006429 Cupin domain; Region: Cupin_2; pfam07883 644282006430 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 644282006431 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 644282006432 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 644282006433 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 644282006434 TPP-binding site [chemical binding]; other site 644282006435 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 644282006436 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 644282006437 dimer interface [polypeptide binding]; other site 644282006438 PYR/PP interface [polypeptide binding]; other site 644282006439 TPP binding site [chemical binding]; other site 644282006440 substrate binding site [chemical binding]; other site 644282006441 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282006442 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282006443 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 644282006444 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 644282006445 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 644282006446 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 644282006447 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 644282006448 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 644282006449 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 644282006450 S-adenosylmethionine binding site [chemical binding]; other site 644282006451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 644282006452 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 644282006453 OstA-like protein; Region: OstA; pfam03968 644282006454 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 644282006455 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 644282006456 Walker A/P-loop; other site 644282006457 ATP binding site [chemical binding]; other site 644282006458 Q-loop/lid; other site 644282006459 ABC transporter signature motif; other site 644282006460 Walker B; other site 644282006461 D-loop; other site 644282006462 H-loop/switch region; other site 644282006463 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 644282006464 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 644282006465 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 644282006466 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 644282006467 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 644282006468 30S subunit binding site; other site 644282006469 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 644282006470 active site 644282006471 phosphorylation site [posttranslational modification] 644282006472 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 644282006473 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 644282006474 active pocket/dimerization site; other site 644282006475 active site 644282006476 phosphorylation site [posttranslational modification] 644282006477 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 644282006478 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282006479 Coenzyme A binding pocket [chemical binding]; other site 644282006480 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 644282006481 Phosphoglycerate kinase; Region: PGK; pfam00162 644282006482 substrate binding site [chemical binding]; other site 644282006483 hinge regions; other site 644282006484 ADP binding site [chemical binding]; other site 644282006485 catalytic site [active] 644282006486 triosephosphate isomerase; Provisional; Region: PRK14565 644282006487 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 644282006488 substrate binding site [chemical binding]; other site 644282006489 dimer interface [polypeptide binding]; other site 644282006490 catalytic triad [active] 644282006491 Preprotein translocase SecG subunit; Region: SecG; pfam03840 644282006492 short chain dehydrogenase; Provisional; Region: PRK07041 644282006493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006494 NAD(P) binding site [chemical binding]; other site 644282006495 active site 644282006496 Predicted membrane protein [Function unknown]; Region: COG2119 644282006497 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 644282006498 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 644282006499 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 644282006500 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 644282006501 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 644282006502 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 644282006503 P loop; other site 644282006504 GTP binding site [chemical binding]; other site 644282006505 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 644282006506 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 644282006507 Walker A/P-loop; other site 644282006508 ATP binding site [chemical binding]; other site 644282006509 Q-loop/lid; other site 644282006510 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 644282006511 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 644282006512 ABC transporter signature motif; other site 644282006513 Walker B; other site 644282006514 D-loop; other site 644282006515 H-loop/switch region; other site 644282006516 photolyase PhrII; Region: phr2; TIGR00591 644282006517 Protein of unknown function (DUF523); Region: DUF523; pfam04463 644282006518 Uncharacterized conserved protein [Function unknown]; Region: COG3272 644282006519 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 644282006520 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 644282006521 DALR anticodon binding domain; Region: DALR_1; pfam05746 644282006522 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 644282006523 dimer interface [polypeptide binding]; other site 644282006524 motif 1; other site 644282006525 active site 644282006526 motif 2; other site 644282006527 motif 3; other site 644282006528 aspartate aminotransferase; Provisional; Region: PRK05764 644282006529 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 644282006530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282006531 homodimer interface [polypeptide binding]; other site 644282006532 catalytic residue [active] 644282006533 PilZ domain; Region: PilZ; pfam07238 644282006534 ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176 644282006535 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644282006536 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 644282006537 TPR motif; other site 644282006538 TPR repeat; Region: TPR_11; pfam13414 644282006539 binding surface 644282006540 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 644282006541 binding surface 644282006542 TPR motif; other site 644282006543 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282006544 HDOD domain; Region: HDOD; pfam08668 644282006545 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 644282006546 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644282006547 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 644282006548 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 644282006549 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 644282006550 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 644282006551 ATP binding site [chemical binding]; other site 644282006552 Walker A motif; other site 644282006553 hexamer interface [polypeptide binding]; other site 644282006554 Walker B motif; other site 644282006555 AAA domain; Region: AAA_31; pfam13614 644282006556 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 644282006557 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 644282006558 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 644282006559 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 644282006560 BON domain; Region: BON; pfam04972 644282006561 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 644282006562 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 644282006563 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 644282006564 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 644282006565 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 644282006566 TadE-like protein; Region: TadE; pfam07811 644282006567 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282006568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006569 active site 644282006570 phosphorylation site [posttranslational modification] 644282006571 intermolecular recognition site; other site 644282006572 dimerization interface [polypeptide binding]; other site 644282006573 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 644282006574 Walker A motif; other site 644282006575 ATP binding site [chemical binding]; other site 644282006576 Walker B motif; other site 644282006577 arginine finger; other site 644282006578 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282006579 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282006580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006581 active site 644282006582 phosphorylation site [posttranslational modification] 644282006583 intermolecular recognition site; other site 644282006584 dimerization interface [polypeptide binding]; other site 644282006585 PAS domain S-box; Region: sensory_box; TIGR00229 644282006586 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 644282006587 putative active site [active] 644282006588 heme pocket [chemical binding]; other site 644282006589 PAS domain S-box; Region: sensory_box; TIGR00229 644282006590 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 644282006591 putative active site [active] 644282006592 heme pocket [chemical binding]; other site 644282006593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282006594 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 644282006595 dimer interface [polypeptide binding]; other site 644282006596 phosphorylation site [posttranslational modification] 644282006597 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 644282006598 ATP binding site [chemical binding]; other site 644282006599 Mg2+ binding site [ion binding]; other site 644282006600 G-X-G motif; other site 644282006601 Response regulator receiver domain; Region: Response_reg; pfam00072 644282006602 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006603 active site 644282006604 phosphorylation site [posttranslational modification] 644282006605 intermolecular recognition site; other site 644282006606 dimerization interface [polypeptide binding]; other site 644282006607 CHASE4 domain; Region: CHASE4; pfam05228 644282006608 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 644282006609 dimerization interface [polypeptide binding]; other site 644282006610 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282006611 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 644282006612 ATP binding site [chemical binding]; other site 644282006613 Mg2+ binding site [ion binding]; other site 644282006614 G-X-G motif; other site 644282006615 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 644282006616 CoenzymeA binding site [chemical binding]; other site 644282006617 subunit interaction site [polypeptide binding]; other site 644282006618 PHB binding site; other site 644282006619 enolase; Provisional; Region: eno; PRK00077 644282006620 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 644282006621 dimer interface [polypeptide binding]; other site 644282006622 metal binding site [ion binding]; metal-binding site 644282006623 substrate binding pocket [chemical binding]; other site 644282006624 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 644282006625 YcaO-like family; Region: YcaO; pfam02624 644282006626 TPR repeat; Region: TPR_11; pfam13414 644282006627 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 644282006628 binding surface 644282006629 TPR motif; other site 644282006630 DsrC like protein; Region: DsrC; pfam04358 644282006631 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 644282006632 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 644282006633 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 644282006634 HIGH motif; other site 644282006635 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644282006636 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 644282006637 active site 644282006638 KMSKS motif; other site 644282006639 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 644282006640 tRNA binding surface [nucleotide binding]; other site 644282006641 anticodon binding site; other site 644282006642 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 644282006643 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 644282006644 AP endonuclease family 2; Region: AP2Ec; smart00518 644282006645 AP (apurinic/apyrimidinic) site pocket; other site 644282006646 DNA interaction; other site 644282006647 Metal-binding active site; metal-binding site 644282006648 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 644282006649 metal-binding site [ion binding] 644282006650 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 644282006651 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 644282006652 metal-binding site [ion binding] 644282006653 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 644282006654 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 644282006655 metal-binding site [ion binding] 644282006656 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644282006657 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 644282006658 motif II; other site 644282006659 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282006660 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 644282006661 ATP binding site [chemical binding]; other site 644282006662 Mg2+ binding site [ion binding]; other site 644282006663 G-X-G motif; other site 644282006664 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 644282006665 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 644282006666 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 644282006667 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 644282006668 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 644282006669 glutamate-1-semialdehyde 2,1-aminomutase; Region: PLN02482 644282006670 FlaG protein; Region: FlaG; pfam03646 644282006671 Response regulator receiver domain; Region: Response_reg; pfam00072 644282006672 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006673 active site 644282006674 phosphorylation site [posttranslational modification] 644282006675 intermolecular recognition site; other site 644282006676 dimerization interface [polypeptide binding]; other site 644282006677 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644282006678 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644282006679 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 644282006680 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282006681 Zn2+ binding site [ion binding]; other site 644282006682 Mg2+ binding site [ion binding]; other site 644282006683 PilZ domain; Region: PilZ; pfam07238 644282006684 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 644282006685 ATP binding site [chemical binding]; other site 644282006686 G-X-G motif; other site 644282006687 HEAT repeats; Region: HEAT_2; pfam13646 644282006688 HEAT repeats; Region: HEAT_2; pfam13646 644282006689 HEAT repeats; Region: HEAT_2; pfam13646 644282006690 HEAT repeats; Region: HEAT_2; pfam13646 644282006691 HEAT repeats; Region: HEAT_2; pfam13646 644282006692 HEAT repeats; Region: HEAT_2; pfam13646 644282006693 Response regulator receiver domain; Region: Response_reg; pfam00072 644282006694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006695 active site 644282006696 phosphorylation site [posttranslational modification] 644282006697 intermolecular recognition site; other site 644282006698 dimerization interface [polypeptide binding]; other site 644282006699 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282006700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006701 active site 644282006702 phosphorylation site [posttranslational modification] 644282006703 intermolecular recognition site; other site 644282006704 dimerization interface [polypeptide binding]; other site 644282006705 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 644282006706 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 644282006707 binding surface 644282006708 TPR motif; other site 644282006709 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 644282006710 binding surface 644282006711 TPR motif; other site 644282006712 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 644282006713 metal binding site 2 [ion binding]; metal-binding site 644282006714 putative DNA binding helix; other site 644282006715 metal binding site 1 [ion binding]; metal-binding site 644282006716 dimer interface [polypeptide binding]; other site 644282006717 structural Zn2+ binding site [ion binding]; other site 644282006718 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 644282006719 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 644282006720 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 644282006721 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282006722 Cysteine-rich domain; Region: CCG; pfam02754 644282006723 Cysteine-rich domain; Region: CCG; pfam02754 644282006724 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282006725 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644282006726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 644282006727 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 644282006728 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 644282006729 active site 644282006730 HIGH motif; other site 644282006731 dimer interface [polypeptide binding]; other site 644282006732 KMSKS motif; other site 644282006733 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644282006734 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 644282006735 active site 644282006736 FMN binding site [chemical binding]; other site 644282006737 substrate binding site [chemical binding]; other site 644282006738 putative catalytic residue [active] 644282006739 ABC transporter ATPase component; Reviewed; Region: PRK11147 644282006740 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282006741 Walker A/P-loop; other site 644282006742 ATP binding site [chemical binding]; other site 644282006743 Q-loop/lid; other site 644282006744 ABC transporter signature motif; other site 644282006745 Walker B; other site 644282006746 D-loop; other site 644282006747 H-loop/switch region; other site 644282006748 ABC transporter; Region: ABC_tran_2; pfam12848 644282006749 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 644282006750 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 644282006751 Mrr N-terminal domain; Region: Mrr_N; pfam14338 644282006752 Restriction endonuclease; Region: Mrr_cat; pfam04471 644282006753 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 644282006754 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 644282006755 active site 644282006756 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 644282006757 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 644282006758 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282006759 active site 644282006760 ATP binding site [chemical binding]; other site 644282006761 PEGA domain; Region: PEGA; pfam08308 644282006762 PEGA domain; Region: PEGA; pfam08308 644282006763 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 644282006764 Autotransporter beta-domain; Region: Autotransporter; pfam03797 644282006765 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 644282006766 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 644282006767 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 644282006768 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 644282006769 NlpC/P60 family; Region: NLPC_P60; cl17555 644282006770 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 644282006771 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282006772 Smr domain; Region: Smr; pfam01713 644282006773 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282006774 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 644282006775 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 644282006776 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 644282006777 P-loop; other site 644282006778 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282006779 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644282006780 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 644282006781 active site 644282006782 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282006783 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282006784 Bacterial transcriptional repressor; Region: TetR; pfam13972 644282006785 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282006786 SCP-2 sterol transfer family; Region: SCP2; pfam02036 644282006787 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 644282006788 Transcriptional regulators [Transcription]; Region: GntR; COG1802 644282006789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644282006790 DNA-binding site [nucleotide binding]; DNA binding site 644282006791 FCD domain; Region: FCD; pfam07729 644282006792 HEAT repeats; Region: HEAT_2; pfam13646 644282006793 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 644282006794 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282006795 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 644282006796 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 644282006797 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 644282006798 Rubredoxin; Region: Rubredoxin; pfam00301 644282006799 iron binding site [ion binding]; other site 644282006800 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 644282006801 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 644282006802 non-heme iron binding site [ion binding]; other site 644282006803 dimer interface [polypeptide binding]; other site 644282006804 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 644282006805 non-heme iron binding site [ion binding]; other site 644282006806 dimer interface [polypeptide binding]; other site 644282006807 Rubrerythrin [Energy production and conversion]; Region: COG1592 644282006808 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 644282006809 binuclear metal center [ion binding]; other site 644282006810 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 644282006811 iron binding site [ion binding]; other site 644282006812 Transcriptional regulators [Transcription]; Region: MarR; COG1846 644282006813 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 644282006814 non-specific DNA interactions [nucleotide binding]; other site 644282006815 DNA binding site [nucleotide binding] 644282006816 sequence specific DNA binding site [nucleotide binding]; other site 644282006817 putative cAMP binding site [chemical binding]; other site 644282006818 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 644282006819 metal binding site 2 [ion binding]; metal-binding site 644282006820 putative DNA binding helix; other site 644282006821 metal binding site 1 [ion binding]; metal-binding site 644282006822 dimer interface [polypeptide binding]; other site 644282006823 structural Zn2+ binding site [ion binding]; other site 644282006824 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 644282006825 Ligand Binding Site [chemical binding]; other site 644282006826 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282006827 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644282006828 Walker A/P-loop; other site 644282006829 ATP binding site [chemical binding]; other site 644282006830 Q-loop/lid; other site 644282006831 ABC transporter signature motif; other site 644282006832 Walker B; other site 644282006833 D-loop; other site 644282006834 H-loop/switch region; other site 644282006835 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282006836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282006837 Walker A/P-loop; other site 644282006838 ATP binding site [chemical binding]; other site 644282006839 Q-loop/lid; other site 644282006840 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282006841 Walker B; other site 644282006842 D-loop; other site 644282006843 H-loop/switch region; other site 644282006844 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 644282006845 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 644282006846 TM-ABC transporter signature motif; other site 644282006847 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 644282006848 TM-ABC transporter signature motif; other site 644282006849 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282006850 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 644282006851 putative ligand binding site [chemical binding]; other site 644282006852 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 644282006853 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 644282006854 putative ligand binding site [chemical binding]; other site 644282006855 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 644282006856 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 644282006857 nucleotide binding site [chemical binding]; other site 644282006858 NEF interaction site [polypeptide binding]; other site 644282006859 SBD interface [polypeptide binding]; other site 644282006860 GrpE; Region: GrpE; pfam01025 644282006861 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 644282006862 dimer interface [polypeptide binding]; other site 644282006863 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 644282006864 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 644282006865 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 644282006866 Predicted metal-binding protein [Function unknown]; Region: COG5561 644282006867 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282006868 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 644282006869 FeS/SAM binding site; other site 644282006870 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 644282006871 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 644282006872 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 644282006873 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 644282006874 TIGR03084 family protein; Region: TIGR03084 644282006875 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 644282006876 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 644282006877 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 644282006878 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 644282006879 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 644282006880 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 644282006881 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 644282006882 catalytic site [active] 644282006883 G-X2-G-X-G-K; other site 644282006884 hypothetical protein; Provisional; Region: PRK04323 644282006885 hypothetical protein; Provisional; Region: PRK11820 644282006886 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 644282006887 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 644282006888 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 644282006889 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 644282006890 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 644282006891 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 644282006892 O-Antigen ligase; Region: Wzy_C; pfam04932 644282006893 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 644282006894 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 644282006895 putative ribose interaction site [chemical binding]; other site 644282006896 putative ADP binding site [chemical binding]; other site 644282006897 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006898 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 644282006899 putative active site [active] 644282006900 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 644282006901 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282006902 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 644282006903 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282006904 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006905 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 644282006906 putative active site [active] 644282006907 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 644282006908 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282006909 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006910 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 644282006911 putative active site [active] 644282006912 Trm112p-like protein; Region: Trm112p; cl01066 644282006913 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006914 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 644282006915 putative active site [active] 644282006916 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 644282006917 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 644282006918 active site 644282006919 motif I; other site 644282006920 motif II; other site 644282006921 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006922 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 644282006923 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 644282006924 putative active site [active] 644282006925 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 644282006926 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 644282006927 putative acyl-acceptor binding pocket; other site 644282006928 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 644282006929 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 644282006930 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 644282006931 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 644282006932 putative active site [active] 644282006933 putative catalytic site [active] 644282006934 putative Zn binding site [ion binding]; other site 644282006935 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 644282006936 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 644282006937 Ligand binding site; other site 644282006938 Putative Catalytic site; other site 644282006939 DXD motif; other site 644282006940 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 644282006941 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 644282006942 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 644282006943 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 644282006944 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 644282006945 active site 644282006946 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 644282006947 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644282006948 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 644282006949 Walker A/P-loop; other site 644282006950 ATP binding site [chemical binding]; other site 644282006951 Q-loop/lid; other site 644282006952 ABC transporter signature motif; other site 644282006953 Walker B; other site 644282006954 D-loop; other site 644282006955 H-loop/switch region; other site 644282006956 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 644282006957 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 644282006958 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 644282006959 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 644282006960 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 644282006961 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 644282006962 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 644282006963 active site 644282006964 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 644282006965 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 644282006966 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 644282006967 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 644282006968 trimer interface [polypeptide binding]; other site 644282006969 active site 644282006970 UDP-GlcNAc binding site [chemical binding]; other site 644282006971 lipid binding site [chemical binding]; lipid-binding site 644282006972 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 644282006973 Predicted integral membrane protein [Function unknown]; Region: COG5616 644282006974 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 644282006975 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644282006976 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644282006977 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644282006978 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644282006979 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 644282006980 Surface antigen; Region: Bac_surface_Ag; pfam01103 644282006981 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282006982 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 644282006983 Walker A/P-loop; other site 644282006984 ATP binding site [chemical binding]; other site 644282006985 Q-loop/lid; other site 644282006986 ABC transporter signature motif; other site 644282006987 Walker B; other site 644282006988 D-loop; other site 644282006989 H-loop/switch region; other site 644282006990 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 644282006991 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644282006992 FtsX-like permease family; Region: FtsX; pfam02687 644282006993 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 644282006994 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 644282006995 dimer interface [polypeptide binding]; other site 644282006996 putative anticodon binding site; other site 644282006997 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 644282006998 motif 1; other site 644282006999 active site 644282007000 motif 2; other site 644282007001 motif 3; other site 644282007002 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 644282007003 Cysteine-rich domain; Region: CCG; pfam02754 644282007004 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 644282007005 Uncharacterized conserved protein [Function unknown]; Region: COG2006 644282007006 Domain of unknown function (DUF362); Region: DUF362; pfam04015 644282007007 4Fe-4S binding domain; Region: Fer4_5; pfam12801 644282007008 4Fe-4S binding domain; Region: Fer4_5; pfam12801 644282007009 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 644282007010 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 644282007011 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 644282007012 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 644282007013 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 644282007014 molybdopterin cofactor binding site; other site 644282007015 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 644282007016 molybdopterin cofactor binding site; other site 644282007017 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 644282007018 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 644282007019 catalytic loop [active] 644282007020 iron binding site [ion binding]; other site 644282007021 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 644282007022 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 644282007023 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 644282007024 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 644282007025 acetyl-CoA synthetase; Provisional; Region: PRK00174 644282007026 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 644282007027 active site 644282007028 CoA binding site [chemical binding]; other site 644282007029 acyl-activating enzyme (AAE) consensus motif; other site 644282007030 AMP binding site [chemical binding]; other site 644282007031 acetate binding site [chemical binding]; other site 644282007032 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644282007033 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 644282007034 putative substrate translocation pore; other site 644282007035 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282007036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007037 active site 644282007038 phosphorylation site [posttranslational modification] 644282007039 intermolecular recognition site; other site 644282007040 dimerization interface [polypeptide binding]; other site 644282007041 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 644282007042 Walker A motif; other site 644282007043 ATP binding site [chemical binding]; other site 644282007044 Walker B motif; other site 644282007045 arginine finger; other site 644282007046 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 644282007047 Cache domain; Region: Cache_2; pfam08269 644282007048 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282007049 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 644282007050 PAS domain; Region: PAS_8; pfam13188 644282007051 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282007052 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 644282007053 dimer interface [polypeptide binding]; other site 644282007054 phosphorylation site [posttranslational modification] 644282007055 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 644282007056 ATP binding site [chemical binding]; other site 644282007057 Mg2+ binding site [ion binding]; other site 644282007058 G-X-G motif; other site 644282007059 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; cl00083 644282007060 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 644282007061 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 644282007062 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 644282007063 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 644282007064 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282007065 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282007066 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644282007067 4Fe-4S binding domain; Region: Fer4; pfam00037 644282007068 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282007069 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 644282007070 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 644282007071 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 644282007072 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 644282007073 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 644282007074 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 644282007075 FAD binding pocket [chemical binding]; other site 644282007076 FAD binding motif [chemical binding]; other site 644282007077 phosphate binding motif [ion binding]; other site 644282007078 beta-alpha-beta structure motif; other site 644282007079 NAD binding pocket [chemical binding]; other site 644282007080 Iron coordination center [ion binding]; other site 644282007081 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282007082 Cysteine-rich domain; Region: CCG; pfam02754 644282007083 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 644282007084 Walker A motif; other site 644282007085 ATP binding site [chemical binding]; other site 644282007086 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 644282007087 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282007088 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282007089 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 644282007090 active site 644282007091 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282007092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007093 NAD(P) binding site [chemical binding]; other site 644282007094 active site 644282007095 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 644282007096 Malic enzyme, N-terminal domain; Region: malic; pfam00390 644282007097 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 644282007098 putative NAD(P) binding site [chemical binding]; other site 644282007099 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 644282007100 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 644282007101 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282007102 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 644282007103 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 644282007104 PilZ domain; Region: PilZ; pfam07238 644282007105 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 644282007106 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 644282007107 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 644282007108 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644282007109 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 644282007110 DNA binding residues [nucleotide binding] 644282007111 PilZ domain; Region: PilZ; pfam07238 644282007112 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 644282007113 FAD binding site [chemical binding]; other site 644282007114 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282007115 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 644282007116 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 644282007117 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282007118 4Fe-4S binding domain; Region: Fer4; pfam00037 644282007119 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 644282007120 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 644282007121 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 644282007122 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 644282007123 FAD binding site [chemical binding]; other site 644282007124 Response regulator receiver domain; Region: Response_reg; pfam00072 644282007125 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007126 active site 644282007127 phosphorylation site [posttranslational modification] 644282007128 intermolecular recognition site; other site 644282007129 dimerization interface [polypeptide binding]; other site 644282007130 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 644282007131 PAS domain; Region: PAS_9; pfam13426 644282007132 putative active site [active] 644282007133 heme pocket [chemical binding]; other site 644282007134 PAS domain; Region: PAS_9; pfam13426 644282007135 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282007136 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 644282007137 dimer interface [polypeptide binding]; other site 644282007138 phosphorylation site [posttranslational modification] 644282007139 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 644282007140 ATP binding site [chemical binding]; other site 644282007141 Mg2+ binding site [ion binding]; other site 644282007142 G-X-G motif; other site 644282007143 Response regulator receiver domain; Region: Response_reg; pfam00072 644282007144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007145 active site 644282007146 phosphorylation site [posttranslational modification] 644282007147 intermolecular recognition site; other site 644282007148 dimerization interface [polypeptide binding]; other site 644282007149 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282007150 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 644282007151 putative active site [active] 644282007152 heme pocket [chemical binding]; other site 644282007153 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 644282007154 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 644282007155 ATP binding site [chemical binding]; other site 644282007156 Mg2+ binding site [ion binding]; other site 644282007157 G-X-G motif; other site 644282007158 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 644282007159 TPP-binding site [chemical binding]; other site 644282007160 dimer interface [polypeptide binding]; other site 644282007161 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 644282007162 PYR/PP interface [polypeptide binding]; other site 644282007163 dimer interface [polypeptide binding]; other site 644282007164 TPP binding site [chemical binding]; other site 644282007165 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 644282007166 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 644282007167 Ligand binding site; other site 644282007168 Putative Catalytic site; other site 644282007169 DXD motif; other site 644282007170 Methyltransferase domain; Region: Methyltransf_23; pfam13489 644282007171 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 644282007172 S-adenosylmethionine binding site [chemical binding]; other site 644282007173 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282007174 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 644282007175 S-adenosylmethionine binding site [chemical binding]; other site 644282007176 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282007177 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 644282007178 S-adenosylmethionine binding site [chemical binding]; other site 644282007179 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 644282007180 S-adenosylmethionine binding site [chemical binding]; other site 644282007181 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 644282007182 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 644282007183 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 644282007184 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282007185 catalytic residue [active] 644282007186 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 644282007187 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 644282007188 inhibitor-cofactor binding pocket; inhibition site 644282007189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282007190 catalytic residue [active] 644282007191 WbqC-like protein family; Region: WbqC; pfam08889 644282007192 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 644282007193 active site 644282007194 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 644282007195 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 644282007196 P loop nucleotide binding; other site 644282007197 switch II; other site 644282007198 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282007199 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282007200 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 644282007201 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644282007202 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 644282007203 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 644282007204 PAS domain; Region: PAS_9; pfam13426 644282007205 putative active site [active] 644282007206 heme pocket [chemical binding]; other site 644282007207 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282007208 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 644282007209 Walker A motif; other site 644282007210 ATP binding site [chemical binding]; other site 644282007211 Walker B motif; other site 644282007212 arginine finger; other site 644282007213 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 644282007214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282007215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282007216 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 644282007217 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282007218 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282007219 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282007220 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644282007221 FtsH Extracellular; Region: FtsH_ext; pfam06480 644282007222 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 644282007223 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 644282007224 Walker A motif; other site 644282007225 ATP binding site [chemical binding]; other site 644282007226 Walker B motif; other site 644282007227 arginine finger; other site 644282007228 Peptidase family M41; Region: Peptidase_M41; pfam01434 644282007229 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 644282007230 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 644282007231 Family description; Region: UvrD_C_2; pfam13538 644282007232 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282007233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007234 active site 644282007235 phosphorylation site [posttranslational modification] 644282007236 intermolecular recognition site; other site 644282007237 dimerization interface [polypeptide binding]; other site 644282007238 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 644282007239 Walker A motif; other site 644282007240 ATP binding site [chemical binding]; other site 644282007241 Walker B motif; other site 644282007242 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282007243 rod shape-determining protein MreB; Provisional; Region: PRK13930 644282007244 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 644282007245 nucleotide binding site [chemical binding]; other site 644282007246 AAA domain; Region: AAA_32; pfam13654 644282007247 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 644282007248 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007249 phosphorylation site [posttranslational modification] 644282007250 aconitate hydratase; Validated; Region: PRK07229 644282007251 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 644282007252 substrate binding site [chemical binding]; other site 644282007253 ligand binding site [chemical binding]; other site 644282007254 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 644282007255 substrate binding site [chemical binding]; other site 644282007256 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 644282007257 putative metal binding site; other site 644282007258 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 644282007259 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 644282007260 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 644282007261 FeS/SAM binding site; other site 644282007262 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 644282007263 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 644282007264 active site 644282007265 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 644282007266 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282007267 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282007268 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 644282007269 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282007270 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 644282007271 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282007272 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282007273 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 644282007274 active site residue [active] 644282007275 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 644282007276 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 644282007277 active site 644282007278 Maf-like protein; Region: Maf; pfam02545 644282007279 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 644282007280 active site 644282007281 dimer interface [polypeptide binding]; other site 644282007282 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 644282007283 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644282007284 catalytic residue [active] 644282007285 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 644282007286 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 644282007287 S-adenosylmethionine binding site [chemical binding]; other site 644282007288 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 644282007289 elongation factor P; Validated; Region: PRK00529 644282007290 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 644282007291 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 644282007292 RNA binding site [nucleotide binding]; other site 644282007293 Elongation factor P, C-terminal; Region: Elong-fact-P_C; pfam09285 644282007294 RNA binding site [nucleotide binding]; other site 644282007295 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 644282007296 binding surface 644282007297 TPR motif; other site 644282007298 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 644282007299 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 644282007300 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 644282007301 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282007302 FeS/SAM binding site; other site 644282007303 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 644282007304 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 644282007305 active site 644282007306 motif I; other site 644282007307 motif II; other site 644282007308 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 644282007309 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 644282007310 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 644282007311 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; cd00368 644282007312 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 644282007313 molybdopterin cofactor binding site; other site 644282007314 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; cd02775 644282007315 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 644282007316 heme-binding residues [chemical binding]; other site 644282007317 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 644282007318 nudix motif; other site 644282007319 Cupin domain; Region: Cupin_2; pfam07883 644282007320 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 644282007321 S-adenosylmethionine binding site [chemical binding]; other site 644282007322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 644282007323 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 644282007324 FAD binding site [chemical binding]; other site 644282007325 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 644282007326 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282007327 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 644282007328 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644282007329 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282007330 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644282007331 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282007332 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 644282007333 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 644282007334 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 644282007335 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 644282007336 Potassium binding sites [ion binding]; other site 644282007337 Cesium cation binding sites [ion binding]; other site 644282007338 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282007339 4Fe-4S binding domain; Region: Fer4; pfam00037 644282007340 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282007341 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 644282007342 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 644282007343 putative GTP cyclohydrolase; Provisional; Region: PRK13674 644282007344 RF-1 domain; Region: RF-1; pfam00472 644282007345 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282007346 dimer interface [polypeptide binding]; other site 644282007347 putative CheW interface [polypeptide binding]; other site 644282007348 4Fe-4S binding domain; Region: Fer4; pfam00037 644282007349 Ferredoxin [Energy production and conversion]; Region: COG1146 644282007350 4Fe-4S binding domain; Region: Fer4; pfam00037 644282007351 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 644282007352 anti sigma factor interaction site; other site 644282007353 regulatory phosphorylation site [posttranslational modification]; other site 644282007354 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 644282007355 active site 644282007356 zinc binding site [ion binding]; other site 644282007357 Na+ binding site [ion binding]; other site 644282007358 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644282007359 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644282007360 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282007361 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282007362 metal binding site [ion binding]; metal-binding site 644282007363 active site 644282007364 I-site; other site 644282007365 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 644282007366 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 644282007367 Int/Topo IB signature motif; other site 644282007368 Phage-related protein [Function unknown]; Region: COG4695 644282007369 Phage portal protein; Region: Phage_portal; pfam04860 644282007370 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 644282007371 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282007372 Phage capsid family; Region: Phage_capsid; pfam05065 644282007373 Phage Terminase; Region: Terminase_1; pfam03354 644282007374 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 644282007375 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 644282007376 active site 644282007377 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 644282007378 polymerase nucleotide-binding site; other site 644282007379 DNA-binding residues [nucleotide binding]; DNA binding site 644282007380 nucleotide binding site [chemical binding]; other site 644282007381 primase nucleotide-binding site [nucleotide binding]; other site 644282007382 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 644282007383 Walker A motif; other site 644282007384 ATP binding site [chemical binding]; other site 644282007385 Helix-turn-helix domain; Region: HTH_17; pfam12728 644282007386 Helix-turn-helix domain; Region: HTH_17; pfam12728 644282007387 Winged helix-turn helix; Region: HTH_29; pfam13551 644282007388 Helix-turn-helix domain; Region: HTH_28; pfam13518 644282007389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 644282007390 Integrase core domain; Region: rve; pfam00665 644282007391 Integrase core domain; Region: rve_3; pfam13683 644282007392 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644282007393 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282007394 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282007395 N-terminal plug; other site 644282007396 ligand-binding site [chemical binding]; other site 644282007397 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644282007398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 644282007399 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 644282007400 PAS domain S-box; Region: sensory_box; TIGR00229 644282007401 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 644282007402 putative active site [active] 644282007403 heme pocket [chemical binding]; other site 644282007404 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282007405 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 644282007406 putative active site [active] 644282007407 heme pocket [chemical binding]; other site 644282007408 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 644282007409 dimer interface [polypeptide binding]; other site 644282007410 phosphorylation site [posttranslational modification] 644282007411 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 644282007412 ATP binding site [chemical binding]; other site 644282007413 Mg2+ binding site [ion binding]; other site 644282007414 G-X-G motif; other site 644282007415 Response regulator receiver domain; Region: Response_reg; pfam00072 644282007416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007417 active site 644282007418 phosphorylation site [posttranslational modification] 644282007419 intermolecular recognition site; other site 644282007420 dimerization interface [polypeptide binding]; other site 644282007421 HAMP domain; Region: HAMP; pfam00672 644282007422 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 644282007423 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 644282007424 dimer interface [polypeptide binding]; other site 644282007425 phosphorylation site [posttranslational modification] 644282007426 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 644282007427 ATP binding site [chemical binding]; other site 644282007428 Mg2+ binding site [ion binding]; other site 644282007429 G-X-G motif; other site 644282007430 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282007431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007432 active site 644282007433 phosphorylation site [posttranslational modification] 644282007434 intermolecular recognition site; other site 644282007435 dimerization interface [polypeptide binding]; other site 644282007436 Cache domain; Region: Cache_1; pfam02743 644282007437 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644282007438 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282007439 dimer interface [polypeptide binding]; other site 644282007440 putative CheW interface [polypeptide binding]; other site 644282007441 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 644282007442 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 644282007443 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 644282007444 putative active site [active] 644282007445 heme pocket [chemical binding]; other site 644282007446 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 644282007447 putative active site [active] 644282007448 heme pocket [chemical binding]; other site 644282007449 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 644282007450 putative active site [active] 644282007451 heme pocket [chemical binding]; other site 644282007452 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282007453 metal binding site [ion binding]; metal-binding site 644282007454 active site 644282007455 I-site; other site 644282007456 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 644282007457 glycerol kinase; Provisional; Region: glpK; PRK00047 644282007458 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 644282007459 nucleotide binding site [chemical binding]; other site 644282007460 PAS domain; Region: PAS; smart00091 644282007461 PAS fold; Region: PAS; pfam00989 644282007462 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 644282007463 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 644282007464 FMN binding site [chemical binding]; other site 644282007465 substrate binding site [chemical binding]; other site 644282007466 putative catalytic residue [active] 644282007467 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 644282007468 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 644282007469 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282007470 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 644282007471 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 644282007472 Predicted permease; Region: DUF318; cl17795 644282007473 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 644282007474 dimerization interface [polypeptide binding]; other site 644282007475 putative DNA binding site [nucleotide binding]; other site 644282007476 putative Zn2+ binding site [ion binding]; other site 644282007477 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 644282007478 dimerization interface [polypeptide binding]; other site 644282007479 putative DNA binding site [nucleotide binding]; other site 644282007480 putative Zn2+ binding site [ion binding]; other site 644282007481 Predicted permeases [General function prediction only]; Region: COG0701 644282007482 DsrE/DsrF-like family; Region: DrsE; cl00672 644282007483 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 644282007484 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 644282007485 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 644282007486 FeS/SAM binding site; other site 644282007487 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 644282007488 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 644282007489 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 644282007490 Catalytic site [active] 644282007491 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 644282007492 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 644282007493 catalytic loop [active] 644282007494 iron binding site [ion binding]; other site 644282007495 Membrane protein of unknown function; Region: DUF360; pfam04020 644282007496 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 644282007497 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 644282007498 putative catalytic site [active] 644282007499 putative phosphate binding site [ion binding]; other site 644282007500 active site 644282007501 metal binding site A [ion binding]; metal-binding site 644282007502 DNA binding site [nucleotide binding] 644282007503 putative AP binding site [nucleotide binding]; other site 644282007504 putative metal binding site B [ion binding]; other site 644282007505 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282007506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282007507 metal binding site [ion binding]; metal-binding site 644282007508 active site 644282007509 I-site; other site 644282007510 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 644282007511 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 644282007512 NAD binding site [chemical binding]; other site 644282007513 substrate binding site [chemical binding]; other site 644282007514 homodimer interface [polypeptide binding]; other site 644282007515 active site 644282007516 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 644282007517 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 644282007518 NADP binding site [chemical binding]; other site 644282007519 active site 644282007520 putative substrate binding site [chemical binding]; other site 644282007521 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 644282007522 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 644282007523 substrate binding site; other site 644282007524 tetramer interface; other site 644282007525 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 644282007526 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 644282007527 TPR motif; other site 644282007528 binding surface 644282007529 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 644282007530 binding surface 644282007531 TPR motif; other site 644282007532 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 644282007533 binding surface 644282007534 TPR motif; other site 644282007535 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 644282007536 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 644282007537 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 644282007538 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 644282007539 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282007540 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 644282007541 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 644282007542 RNA methyltransferase, RsmE family; Region: TIGR00046 644282007543 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 644282007544 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 644282007545 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 644282007546 S-adenosylmethionine binding site [chemical binding]; other site 644282007547 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 644282007548 AIR carboxylase; Region: AIRC; smart01001 644282007549 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 644282007550 putative active site [active] 644282007551 dimerization interface [polypeptide binding]; other site 644282007552 putative tRNAtyr binding site [nucleotide binding]; other site 644282007553 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 644282007554 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 644282007555 dimerization interface [polypeptide binding]; other site 644282007556 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 644282007557 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 644282007558 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 644282007559 PhoU domain; Region: PhoU; pfam01895 644282007560 PhoU domain; Region: PhoU; pfam01895 644282007561 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 644282007562 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 644282007563 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 644282007564 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 644282007565 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 644282007566 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644282007567 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282007568 flagellar motor protein MotP; Reviewed; Region: PRK06926 644282007569 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 644282007570 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282007571 ligand binding site [chemical binding]; other site 644282007572 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 644282007573 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282007574 ligand binding site [chemical binding]; other site 644282007575 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 644282007576 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 644282007577 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 644282007578 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 644282007579 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 644282007580 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 644282007581 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 644282007582 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 644282007583 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 644282007584 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 644282007585 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 644282007586 FHIPEP family; Region: FHIPEP; pfam00771 644282007587 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 644282007588 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282007589 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 644282007590 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 644282007591 P-loop; other site 644282007592 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 644282007593 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 644282007594 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282007595 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644282007596 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 644282007597 DNA binding residues [nucleotide binding] 644282007598 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282007599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007600 active site 644282007601 phosphorylation site [posttranslational modification] 644282007602 intermolecular recognition site; other site 644282007603 dimerization interface [polypeptide binding]; other site 644282007604 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 644282007605 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 644282007606 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 644282007607 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644282007608 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 644282007609 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 644282007610 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 644282007611 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644282007612 SAF-like; Region: SAF_2; pfam13144 644282007613 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 644282007614 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 644282007615 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 644282007616 Flagellar L-ring protein; Region: FlgH; pfam02107 644282007617 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 644282007618 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 644282007619 Rod binding protein; Region: Rod-binding; pfam10135 644282007620 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 644282007621 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282007622 FlgN protein; Region: FlgN; pfam05130 644282007623 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 644282007624 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 644282007625 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 644282007626 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 644282007627 Global regulator protein family; Region: CsrA; pfam02599 644282007628 flagellar assembly protein FliW; Provisional; Region: PRK13285 644282007629 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 644282007630 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 644282007631 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 644282007632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 644282007633 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 644282007634 active site 644282007635 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 644282007636 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 644282007637 TPR motif; other site 644282007638 binding surface 644282007639 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 644282007640 binding surface 644282007641 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282007642 TPR motif; other site 644282007643 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 644282007644 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282007645 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 644282007646 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282007647 putative active site [active] 644282007648 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 644282007649 Flagellar protein FliS; Region: FliS; cl00654 644282007650 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 644282007651 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 644282007652 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 644282007653 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 644282007654 putative metal binding site; other site 644282007655 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 644282007656 TPR motif; other site 644282007657 binding surface 644282007658 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644282007659 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644282007660 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644282007661 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644282007662 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644282007663 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644282007664 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282007665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282007666 metal binding site [ion binding]; metal-binding site 644282007667 active site 644282007668 I-site; other site 644282007669 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 644282007670 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 644282007671 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 644282007672 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 644282007673 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 644282007674 dimer interface [polypeptide binding]; other site 644282007675 PYR/PP interface [polypeptide binding]; other site 644282007676 TPP binding site [chemical binding]; other site 644282007677 substrate binding site [chemical binding]; other site 644282007678 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644282007679 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 644282007680 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 644282007681 TPP-binding site [chemical binding]; other site 644282007682 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 644282007683 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 644282007684 ACT domain-containing protein [General function prediction only]; Region: COG4747 644282007685 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282007686 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282007687 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 644282007688 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282007689 putative ligand binding site [chemical binding]; other site 644282007690 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 644282007691 exopolyphosphatase; Region: exo_poly_only; TIGR03706 644282007692 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 644282007693 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 644282007694 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 644282007695 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 644282007696 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 644282007697 active site 644282007698 GMP synthase; Reviewed; Region: guaA; PRK00074 644282007699 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 644282007700 AMP/PPi binding site [chemical binding]; other site 644282007701 candidate oxyanion hole; other site 644282007702 catalytic triad [active] 644282007703 potential glutamine specificity residues [chemical binding]; other site 644282007704 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 644282007705 ATP Binding subdomain [chemical binding]; other site 644282007706 Ligand Binding sites [chemical binding]; other site 644282007707 Dimerization subdomain; other site 644282007708 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 644282007709 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 644282007710 active site 644282007711 PHP Thumb interface [polypeptide binding]; other site 644282007712 metal binding site [ion binding]; metal-binding site 644282007713 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 644282007714 generic binding surface II; other site 644282007715 generic binding surface I; other site 644282007716 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 644282007717 futalosine nucleosidase; Region: fut_nucase; TIGR03664 644282007718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282007719 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282007720 transcription antitermination factor NusB; Region: nusB; TIGR01951 644282007721 putative RNA binding site [nucleotide binding]; other site 644282007722 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 644282007723 homopentamer interface [polypeptide binding]; other site 644282007724 active site 644282007725 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 644282007726 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 644282007727 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 644282007728 dimerization interface [polypeptide binding]; other site 644282007729 active site 644282007730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 644282007731 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 644282007732 Lumazine binding domain; Region: Lum_binding; pfam00677 644282007733 Lumazine binding domain; Region: Lum_binding; pfam00677 644282007734 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 644282007735 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 644282007736 catalytic motif [active] 644282007737 Zn binding site [ion binding]; other site 644282007738 RibD C-terminal domain; Region: RibD_C; cl17279 644282007739 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 644282007740 ATP cone domain; Region: ATP-cone; pfam03477 644282007741 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 644282007742 active site 644282007743 Zn binding site [ion binding]; other site 644282007744 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 644282007745 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 644282007746 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 644282007747 dimer interface [polypeptide binding]; other site 644282007748 active site 644282007749 acyl carrier protein; Provisional; Region: acpP; PRK00982 644282007750 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 644282007751 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 644282007752 NAD(P) binding site [chemical binding]; other site 644282007753 homotetramer interface [polypeptide binding]; other site 644282007754 homodimer interface [polypeptide binding]; other site 644282007755 active site 644282007756 4Fe-4S binding domain; Region: Fer4; pfam00037 644282007757 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 644282007758 4Fe-4S binding domain; Region: Fer4; pfam00037 644282007759 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 644282007760 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 644282007761 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 644282007762 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 644282007763 Ligand binding site [chemical binding]; other site 644282007764 Electron transfer flavoprotein domain; Region: ETF; pfam01012 644282007765 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282007766 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282007767 active site 644282007768 putative phosphate acyltransferase; Provisional; Region: PRK05331 644282007769 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 644282007770 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 644282007771 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 644282007772 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 644282007773 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 644282007774 muropeptide transporter; Validated; Region: ampG; cl17669 644282007775 muropeptide transporter; Reviewed; Region: ampG; PRK11902 644282007776 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 644282007777 HflK protein; Region: hflK; TIGR01933 644282007778 HflC protein; Region: hflC; TIGR01932 644282007779 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 644282007780 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 644282007781 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 644282007782 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 644282007783 GTPase CgtA; Reviewed; Region: obgE; PRK12299 644282007784 GTP1/OBG; Region: GTP1_OBG; pfam01018 644282007785 Obg GTPase; Region: Obg; cd01898 644282007786 G1 box; other site 644282007787 GTP/Mg2+ binding site [chemical binding]; other site 644282007788 Switch I region; other site 644282007789 G2 box; other site 644282007790 G3 box; other site 644282007791 Switch II region; other site 644282007792 G4 box; other site 644282007793 G5 box; other site 644282007794 gamma-glutamyl kinase; Provisional; Region: PRK05429 644282007795 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 644282007796 nucleotide binding site [chemical binding]; other site 644282007797 homotetrameric interface [polypeptide binding]; other site 644282007798 putative phosphate binding site [ion binding]; other site 644282007799 putative allosteric binding site; other site 644282007800 PUA domain; Region: PUA; pfam01472 644282007801 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 644282007802 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 644282007803 putative catalytic cysteine [active] 644282007804 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 644282007805 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 644282007806 active site 644282007807 (T/H)XGH motif; other site 644282007808 Oligomerisation domain; Region: Oligomerisation; pfam02410 644282007809 phosphoglyceromutase; Provisional; Region: PRK05434 644282007810 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 644282007811 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 644282007812 Peptidase family M48; Region: Peptidase_M48; pfam01435 644282007813 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 644282007814 binding surface 644282007815 TPR motif; other site 644282007816 elongation factor G; Reviewed; Region: PRK00007 644282007817 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 644282007818 G1 box; other site 644282007819 putative GEF interaction site [polypeptide binding]; other site 644282007820 GTP/Mg2+ binding site [chemical binding]; other site 644282007821 Switch I region; other site 644282007822 G2 box; other site 644282007823 G3 box; other site 644282007824 Switch II region; other site 644282007825 G4 box; other site 644282007826 G5 box; other site 644282007827 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 644282007828 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 644282007829 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 644282007830 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 644282007831 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 644282007832 minor groove reading motif; other site 644282007833 helix-hairpin-helix signature motif; other site 644282007834 substrate binding pocket [chemical binding]; other site 644282007835 active site 644282007836 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282007837 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 644282007838 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 644282007839 recombination protein RecR; Reviewed; Region: recR; PRK00076 644282007840 RecR protein; Region: RecR; pfam02132 644282007841 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 644282007842 putative active site [active] 644282007843 putative metal-binding site [ion binding]; other site 644282007844 tetramer interface [polypeptide binding]; other site 644282007845 hypothetical protein; Validated; Region: PRK00153 644282007846 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 644282007847 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 644282007848 Walker A motif; other site 644282007849 ATP binding site [chemical binding]; other site 644282007850 Walker B motif; other site 644282007851 arginine finger; other site 644282007852 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 644282007853 Domain of unknown function DUF77; Region: DUF77; pfam01910 644282007854 Peptidase family M48; Region: Peptidase_M48; pfam01435 644282007855 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 644282007856 TPR motif; other site 644282007857 binding surface 644282007858 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 644282007859 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 644282007860 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 644282007861 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 644282007862 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 644282007863 putative trimer interface [polypeptide binding]; other site 644282007864 putative active site [active] 644282007865 putative substrate binding site [chemical binding]; other site 644282007866 putative CoA binding site [chemical binding]; other site 644282007867 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 644282007868 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 644282007869 Ligand Binding Site [chemical binding]; other site 644282007870 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 644282007871 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 644282007872 putative active site [active] 644282007873 PhoH-like protein; Region: PhoH; pfam02562 644282007874 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 644282007875 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 644282007876 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 644282007877 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 644282007878 binding surface 644282007879 TPR motif; other site 644282007880 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 644282007881 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282007882 ligand binding site [chemical binding]; other site 644282007883 TonB C terminal; Region: TonB_2; pfam13103 644282007884 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 644282007885 TolR protein; Region: tolR; TIGR02801 644282007886 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282007887 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 644282007888 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 644282007889 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 644282007890 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282007891 catalytic residue [active] 644282007892 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 644282007893 thiamine monophosphate kinase; Provisional; Region: PRK05731 644282007894 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 644282007895 dimerization interface [polypeptide binding]; other site 644282007896 ATP binding site [chemical binding]; other site 644282007897 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 644282007898 active site 644282007899 multimer interface [polypeptide binding]; other site 644282007900 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 644282007901 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 644282007902 cobalamin binding residues [chemical binding]; other site 644282007903 putative BtuC binding residues; other site 644282007904 dimer interface [polypeptide binding]; other site 644282007905 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 644282007906 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 644282007907 ABC-ATPase subunit interface; other site 644282007908 dimer interface [polypeptide binding]; other site 644282007909 putative PBP binding regions; other site 644282007910 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 644282007911 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282007912 Walker A/P-loop; other site 644282007913 ATP binding site [chemical binding]; other site 644282007914 Q-loop/lid; other site 644282007915 ABC transporter signature motif; other site 644282007916 Walker B; other site 644282007917 D-loop; other site 644282007918 H-loop/switch region; other site 644282007919 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282007920 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282007921 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644282007922 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282007923 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 644282007924 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 644282007925 Amidase; Region: Amidase; pfam01425 644282007926 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282007927 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 644282007928 substrate binding site [chemical binding]; other site 644282007929 oxyanion hole (OAH) forming residues; other site 644282007930 trimer interface [polypeptide binding]; other site 644282007931 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 644282007932 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282007933 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282007934 active site 644282007935 enoyl-CoA hydratase; Provisional; Region: PRK07658 644282007936 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 644282007937 substrate binding site [chemical binding]; other site 644282007938 oxyanion hole (OAH) forming residues; other site 644282007939 trimer interface [polypeptide binding]; other site 644282007940 putative acyltransferase; Provisional; Region: PRK05790 644282007941 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 644282007942 dimer interface [polypeptide binding]; other site 644282007943 active site 644282007944 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644282007945 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 644282007946 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282007947 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282007948 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282007949 active site 644282007950 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 644282007951 PAS domain; Region: PAS_9; pfam13426 644282007952 putative active site [active] 644282007953 heme pocket [chemical binding]; other site 644282007954 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 644282007955 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 644282007956 Walker A motif; other site 644282007957 ATP binding site [chemical binding]; other site 644282007958 Walker B motif; other site 644282007959 arginine finger; other site 644282007960 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282007961 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 644282007962 Predicted permeases [General function prediction only]; Region: COG0701 644282007963 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 644282007964 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282007965 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 644282007966 catalytic triad [active] 644282007967 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 644282007968 Precorrin-8X methylmutase; Region: CbiC; pfam02570 644282007969 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 644282007970 active site 644282007971 SAM binding site [chemical binding]; other site 644282007972 homodimer interface [polypeptide binding]; other site 644282007973 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 644282007974 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 644282007975 active site 644282007976 putative homodimer interface [polypeptide binding]; other site 644282007977 SAM binding site [chemical binding]; other site 644282007978 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 644282007979 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 644282007980 S-adenosylmethionine binding site [chemical binding]; other site 644282007981 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 644282007982 active site 644282007983 SAM binding site [chemical binding]; other site 644282007984 homodimer interface [polypeptide binding]; other site 644282007985 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 644282007986 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 644282007987 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 644282007988 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 644282007989 active site 644282007990 SAM binding site [chemical binding]; other site 644282007991 homodimer interface [polypeptide binding]; other site 644282007992 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 644282007993 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 644282007994 active site 644282007995 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 644282007996 active site 644282007997 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 644282007998 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282007999 Walker A/P-loop; other site 644282008000 ATP binding site [chemical binding]; other site 644282008001 Q-loop/lid; other site 644282008002 ABC transporter signature motif; other site 644282008003 Walker B; other site 644282008004 D-loop; other site 644282008005 H-loop/switch region; other site 644282008006 ABC-2 type transporter; Region: ABC2_membrane; cl17235 644282008007 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 644282008008 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 644282008009 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 644282008010 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282008011 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 644282008012 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282008013 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 644282008014 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 644282008015 intersubunit interface [polypeptide binding]; other site 644282008016 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 644282008017 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 644282008018 ABC-ATPase subunit interface; other site 644282008019 dimer interface [polypeptide binding]; other site 644282008020 putative PBP binding regions; other site 644282008021 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 644282008022 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 644282008023 Walker A/P-loop; other site 644282008024 ATP binding site [chemical binding]; other site 644282008025 Q-loop/lid; other site 644282008026 ABC transporter signature motif; other site 644282008027 Walker B; other site 644282008028 D-loop; other site 644282008029 H-loop/switch region; other site 644282008030 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 644282008031 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 644282008032 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282008033 N-terminal plug; other site 644282008034 ligand-binding site [chemical binding]; other site 644282008035 Alkaline phosphatase homologues; Region: alkPPc; smart00098 644282008036 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 644282008037 active site 644282008038 dimer interface [polypeptide binding]; other site 644282008039 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 644282008040 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 644282008041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282008042 Walker A/P-loop; other site 644282008043 ATP binding site [chemical binding]; other site 644282008044 Q-loop/lid; other site 644282008045 ABC transporter signature motif; other site 644282008046 Walker B; other site 644282008047 D-loop; other site 644282008048 H-loop/switch region; other site 644282008049 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 644282008050 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 644282008051 TM-ABC transporter signature motif; other site 644282008052 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 644282008053 zinc binding site [ion binding]; other site 644282008054 putative ligand binding site [chemical binding]; other site 644282008055 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 644282008056 zinc binding site [ion binding]; other site 644282008057 putative ligand binding site [chemical binding]; other site 644282008058 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 644282008059 anti sigma factor interaction site; other site 644282008060 regulatory phosphorylation site [posttranslational modification]; other site 644282008061 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 644282008062 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644282008063 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644282008064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282008065 Walker A/P-loop; other site 644282008066 ATP binding site [chemical binding]; other site 644282008067 Q-loop/lid; other site 644282008068 ABC transporter signature motif; other site 644282008069 Walker B; other site 644282008070 D-loop; other site 644282008071 H-loop/switch region; other site 644282008072 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644282008073 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644282008074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282008075 Walker A/P-loop; other site 644282008076 ATP binding site [chemical binding]; other site 644282008077 Q-loop/lid; other site 644282008078 ABC transporter signature motif; other site 644282008079 Walker B; other site 644282008080 D-loop; other site 644282008081 H-loop/switch region; other site 644282008082 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 644282008083 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 644282008084 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 644282008085 Walker A motif; other site 644282008086 ATP binding site [chemical binding]; other site 644282008087 Walker B motif; other site 644282008088 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 644282008089 Helix-turn-helix domain; Region: HTH_18; pfam12833 644282008090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282008091 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644282008092 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282008093 N-terminal plug; other site 644282008094 ligand-binding site [chemical binding]; other site 644282008095 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 644282008096 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 644282008097 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 644282008098 active site 644282008099 catalytic site [active] 644282008100 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 644282008101 active site 2 [active] 644282008102 active site 1 [active] 644282008103 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 644282008104 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282008105 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 644282008106 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 644282008107 B12 binding site [chemical binding]; other site 644282008108 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 644282008109 FeS/SAM binding site; other site 644282008110 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 644282008111 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 644282008112 B12 binding domain; Region: B12-binding; pfam02310 644282008113 B12 binding site [chemical binding]; other site 644282008114 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 644282008115 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 644282008116 B12 binding site [chemical binding]; other site 644282008117 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 644282008118 B12 binding domain; Region: B12-binding; pfam02310 644282008119 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 644282008120 FeS/SAM binding site; other site 644282008121 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 644282008122 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 644282008123 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 644282008124 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644282008125 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282008126 Walker A/P-loop; other site 644282008127 ATP binding site [chemical binding]; other site 644282008128 Q-loop/lid; other site 644282008129 ABC transporter signature motif; other site 644282008130 Walker B; other site 644282008131 D-loop; other site 644282008132 H-loop/switch region; other site 644282008133 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 644282008134 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 644282008135 putative active site [active] 644282008136 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644282008137 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282008138 Walker A/P-loop; other site 644282008139 ATP binding site [chemical binding]; other site 644282008140 Q-loop/lid; other site 644282008141 ABC transporter signature motif; other site 644282008142 Walker B; other site 644282008143 D-loop; other site 644282008144 H-loop/switch region; other site 644282008145 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 644282008146 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282008147 Outer membrane efflux protein; Region: OEP; pfam02321 644282008148 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282008149 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 644282008150 acyl-activating enzyme (AAE) consensus motif; other site 644282008151 AMP binding site [chemical binding]; other site 644282008152 active site 644282008153 CoA binding site [chemical binding]; other site 644282008154 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 644282008155 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282008156 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 644282008157 FeS/SAM binding site; other site 644282008158 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 644282008159 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282008160 FeS/SAM binding site; other site 644282008161 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644282008162 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 644282008163 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 644282008164 Walker A/P-loop; other site 644282008165 ATP binding site [chemical binding]; other site 644282008166 Q-loop/lid; other site 644282008167 ABC transporter signature motif; other site 644282008168 Walker B; other site 644282008169 D-loop; other site 644282008170 H-loop/switch region; other site 644282008171 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 644282008172 FeS/SAM binding site; other site 644282008173 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 644282008174 radical SAM/SPASM domain protein, GRRM system; Region: rSAM_GlyRichRpt; TIGR04261 644282008175 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 644282008176 FeS/SAM binding site; other site 644282008177 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 644282008178 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 644282008179 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282008180 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; cd05709 644282008181 active site 644282008182 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644282008183 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644282008184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282008185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282008186 metal binding site [ion binding]; metal-binding site 644282008187 active site 644282008188 I-site; other site 644282008189 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282008190 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 644282008191 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282008192 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282008193 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 644282008194 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282008195 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 644282008196 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 644282008197 FeS/SAM binding site; other site 644282008198 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 644282008199 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 644282008200 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 644282008201 Walker A motif; other site 644282008202 ATP binding site [chemical binding]; other site 644282008203 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 644282008204 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 644282008205 metal ion-dependent adhesion site (MIDAS); other site 644282008206 Predicted amidohydrolase [General function prediction only]; Region: COG0388 644282008207 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 644282008208 active site 644282008209 catalytic triad [active] 644282008210 dimer interface [polypeptide binding]; other site 644282008211 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 644282008212 active site 644282008213 catalytic triad [active] 644282008214 dimer interface [polypeptide binding]; other site 644282008215 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 644282008216 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282008217 N-terminal plug; other site 644282008218 ligand-binding site [chemical binding]; other site 644282008219 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 644282008220 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 644282008221 Walker A/P-loop; other site 644282008222 ATP binding site [chemical binding]; other site 644282008223 Q-loop/lid; other site 644282008224 ABC transporter signature motif; other site 644282008225 Walker B; other site 644282008226 D-loop; other site 644282008227 H-loop/switch region; other site 644282008228 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 644282008229 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 644282008230 Walker A/P-loop; other site 644282008231 ATP binding site [chemical binding]; other site 644282008232 Q-loop/lid; other site 644282008233 ABC transporter signature motif; other site 644282008234 Walker B; other site 644282008235 D-loop; other site 644282008236 H-loop/switch region; other site 644282008237 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 644282008238 PQQ-like domain; Region: PQQ_2; pfam13360 644282008239 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 644282008240 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 644282008241 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 644282008242 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 644282008243 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 644282008244 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 644282008245 S-adenosylmethionine binding site [chemical binding]; other site 644282008246 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 644282008247 Fic family protein [Function unknown]; Region: COG3177 644282008248 Fic/DOC family; Region: Fic; pfam02661 644282008249 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 644282008250 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 644282008251 Part of AAA domain; Region: AAA_19; pfam13245 644282008252 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 644282008253 AAA domain; Region: AAA_12; pfam13087 644282008254 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 644282008255 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 644282008256 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 644282008257 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 644282008258 ATP binding site [chemical binding]; other site 644282008259 putative Mg++ binding site [ion binding]; other site 644282008260 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 644282008261 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644282008262 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 644282008263 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644282008264 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 644282008265 BRO family, N-terminal domain; Region: Bro-N; pfam02498 644282008266 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 644282008267 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644282008268 Methyltransferase domain; Region: Methyltransf_26; pfam13659 644282008269 GxxExxY protein; Region: GxxExxY; TIGR04256 644282008270 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 644282008271 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644282008272 Methyltransferase domain; Region: Methyltransf_26; pfam13659 644282008273 DNA binding domain, excisionase family; Region: excise; TIGR01764 644282008274 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 644282008275 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 644282008276 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 644282008277 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282008278 Phage capsid family; Region: Phage_capsid; pfam05065 644282008279 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 644282008280 Phage portal protein; Region: Phage_portal; pfam04860 644282008281 Phage-related protein [Function unknown]; Region: COG4695 644282008282 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 644282008283 Phage terminase, small subunit; Region: Terminase_4; pfam05119 644282008284 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 644282008285 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 644282008286 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644282008287 non-specific DNA binding site [nucleotide binding]; other site 644282008288 salt bridge; other site 644282008289 sequence-specific DNA binding site [nucleotide binding]; other site 644282008290 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644282008291 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 644282008292 non-specific DNA binding site [nucleotide binding]; other site 644282008293 salt bridge; other site 644282008294 sequence-specific DNA binding site [nucleotide binding]; other site 644282008295 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 644282008296 ParB-like nuclease domain; Region: ParBc; pfam02195 644282008297 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 644282008298 DNA methylase; Region: N6_N4_Mtase; pfam01555 644282008299 Protein of unknown function (DUF968); Region: DUF968; pfam06147 644282008300 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 644282008301 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282008302 Coenzyme A binding pocket [chemical binding]; other site 644282008303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 644282008304 hypothetical protein; Validated; Region: PRK07078 644282008305 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 644282008306 active site 644282008307 metal binding site [ion binding]; metal-binding site 644282008308 D5 N terminal like; Region: D5_N; smart00885 644282008309 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 644282008310 Ligand Binding Site [chemical binding]; other site 644282008311 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 644282008312 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 644282008313 catalytic residues [active] 644282008314 catalytic nucleophile [active] 644282008315 Presynaptic Site I dimer interface [polypeptide binding]; other site 644282008316 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644282008317 Synaptic Flat tetramer interface [polypeptide binding]; other site 644282008318 Synaptic Site I dimer interface [polypeptide binding]; other site 644282008319 DNA binding site [nucleotide binding] 644282008320 Recombinase; Region: Recombinase; pfam07508 644282008321 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 644282008322 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 644282008323 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 644282008324 additional DNA contacts [nucleotide binding]; other site 644282008325 mismatch recognition site; other site 644282008326 active site 644282008327 zinc binding site [ion binding]; other site 644282008328 DNA intercalation site [nucleotide binding]; other site 644282008329 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 644282008330 ATP binding site [chemical binding]; other site 644282008331 Mg2+ binding site [ion binding]; other site 644282008332 G-X-G motif; other site 644282008333 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 644282008334 Putative catalytic domain of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar4; cd09132 644282008335 putative active site [active] 644282008336 putative catalytic site [active] 644282008337 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 644282008338 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 644282008339 nucleotide binding region [chemical binding]; other site 644282008340 ATP-binding site [chemical binding]; other site 644282008341 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 644282008342 Restriction endonuclease; Region: Mrr_cat; pfam04471 644282008343 DEAD-like helicases superfamily; Region: DEXDc; smart00487 644282008344 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 644282008345 ATP binding site [chemical binding]; other site 644282008346 putative Mg++ binding site [ion binding]; other site 644282008347 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 644282008348 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 644282008349 nucleotide binding region [chemical binding]; other site 644282008350 ATP-binding site [chemical binding]; other site 644282008351 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 644282008352 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 644282008353 cofactor binding site; other site 644282008354 DNA binding site [nucleotide binding] 644282008355 substrate interaction site [chemical binding]; other site 644282008356 DNA binding domain, excisionase family; Region: excise; TIGR01764 644282008357 Winged helix-turn helix; Region: HTH_29; pfam13551 644282008358 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 644282008359 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 644282008360 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 644282008361 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 644282008362 oligomerization interface [polypeptide binding]; other site 644282008363 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282008364 Phage capsid family; Region: Phage_capsid; pfam05065 644282008365 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 644282008366 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 644282008367 oligomer interface [polypeptide binding]; other site 644282008368 active site residues [active] 644282008369 Phage-related protein [Function unknown]; Region: COG4695 644282008370 Phage portal protein; Region: Phage_portal; pfam04860 644282008371 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 644282008372 Phage terminase, small subunit; Region: Terminase_4; pfam05119 644282008373 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 644282008374 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 644282008375 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 644282008376 non-specific DNA binding site [nucleotide binding]; other site 644282008377 salt bridge; other site 644282008378 sequence-specific DNA binding site [nucleotide binding]; other site 644282008379 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 644282008380 ParB-like nuclease domain; Region: ParBc; pfam02195 644282008381 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 644282008382 DNA methylase; Region: N6_N4_Mtase; pfam01555 644282008383 ParB-like nuclease domain; Region: ParBc; pfam02195 644282008384 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 644282008385 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 644282008386 DNA methylase; Region: N6_N4_Mtase; pfam01555 644282008387 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 644282008388 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 644282008389 active site 644282008390 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 644282008391 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 644282008392 Coenzyme A binding pocket [chemical binding]; other site 644282008393 Fic family protein [Function unknown]; Region: COG3177 644282008394 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 644282008395 Fic/DOC family; Region: Fic; pfam02661 644282008396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 644282008397 hypothetical protein; Validated; Region: PRK07078 644282008398 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 644282008399 active site 644282008400 metal binding site [ion binding]; metal-binding site 644282008401 interdomain interaction site; other site 644282008402 D5 N terminal like; Region: D5_N; smart00885 644282008403 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 644282008404 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 644282008405 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 644282008406 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 644282008407 catalytic residues [active] 644282008408 catalytic nucleophile [active] 644282008409 Presynaptic Site I dimer interface [polypeptide binding]; other site 644282008410 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644282008411 Synaptic Flat tetramer interface [polypeptide binding]; other site 644282008412 Synaptic Site I dimer interface [polypeptide binding]; other site 644282008413 DNA binding site [nucleotide binding] 644282008414 Recombinase; Region: Recombinase; pfam07508 644282008415 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 644282008416 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 644282008417 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 644282008418 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 644282008419 putative acyl-acceptor binding pocket; other site 644282008420 DEAD-like helicases superfamily; Region: DEXDc; smart00487 644282008421 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 644282008422 ATP binding site [chemical binding]; other site 644282008423 putative Mg++ binding site [ion binding]; other site 644282008424 helicase superfamily c-terminal domain; Region: HELICc; smart00490 644282008425 nucleotide binding region [chemical binding]; other site 644282008426 ATP-binding site [chemical binding]; other site 644282008427 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 644282008428 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 644282008429 DNA binding residues [nucleotide binding] 644282008430 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 644282008431 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 644282008432 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 644282008433 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282008434 putative active site [active] 644282008435 heme pocket [chemical binding]; other site 644282008436 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 644282008437 PAS domain; Region: PAS_9; pfam13426 644282008438 putative active site [active] 644282008439 heme pocket [chemical binding]; other site 644282008440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282008441 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 644282008442 dimer interface [polypeptide binding]; other site 644282008443 phosphorylation site [posttranslational modification] 644282008444 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 644282008445 ATP binding site [chemical binding]; other site 644282008446 Mg2+ binding site [ion binding]; other site 644282008447 G-X-G motif; other site 644282008448 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282008449 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008450 active site 644282008451 phosphorylation site [posttranslational modification] 644282008452 intermolecular recognition site; other site 644282008453 dimerization interface [polypeptide binding]; other site 644282008454 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 644282008455 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282008456 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 644282008457 substrate binding pocket [chemical binding]; other site 644282008458 membrane-bound complex binding site; other site 644282008459 hinge residues; other site 644282008460 GTP-binding protein LepA; Provisional; Region: PRK05433 644282008461 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 644282008462 G1 box; other site 644282008463 putative GEF interaction site [polypeptide binding]; other site 644282008464 GTP/Mg2+ binding site [chemical binding]; other site 644282008465 Switch I region; other site 644282008466 G2 box; other site 644282008467 G3 box; other site 644282008468 Switch II region; other site 644282008469 G4 box; other site 644282008470 G5 box; other site 644282008471 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 644282008472 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 644282008473 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 644282008474 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 644282008475 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 644282008476 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 644282008477 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 644282008478 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 644282008479 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 644282008480 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 644282008481 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 644282008482 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 644282008483 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 644282008484 active site residue [active] 644282008485 Methylamine utilisation protein MauE; Region: MauE; pfam07291 644282008486 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 644282008487 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 644282008488 catalytic residues [active] 644282008489 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 644282008490 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 644282008491 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 644282008492 Walker A/P-loop; other site 644282008493 ATP binding site [chemical binding]; other site 644282008494 Q-loop/lid; other site 644282008495 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 644282008496 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 644282008497 GAF domain; Region: GAF_3; pfam13492 644282008498 GAF domain; Region: GAF_3; pfam13492 644282008499 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644282008500 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644282008501 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 644282008502 dimer interface [polypeptide binding]; other site 644282008503 phosphorylation site [posttranslational modification] 644282008504 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 644282008505 ATP binding site [chemical binding]; other site 644282008506 Mg2+ binding site [ion binding]; other site 644282008507 G-X-G motif; other site 644282008508 glycogen synthase; Provisional; Region: glgA; PRK00654 644282008509 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 644282008510 ADP-binding pocket [chemical binding]; other site 644282008511 homodimer interface [polypeptide binding]; other site 644282008512 PAS fold; Region: PAS_4; pfam08448 644282008513 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 644282008514 putative active site [active] 644282008515 heme pocket [chemical binding]; other site 644282008516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282008517 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 644282008518 dimer interface [polypeptide binding]; other site 644282008519 phosphorylation site [posttranslational modification] 644282008520 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 644282008521 ATP binding site [chemical binding]; other site 644282008522 Mg2+ binding site [ion binding]; other site 644282008523 G-X-G motif; other site 644282008524 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008526 active site 644282008527 phosphorylation site [posttranslational modification] 644282008528 intermolecular recognition site; other site 644282008529 dimerization interface [polypeptide binding]; other site 644282008530 Macro domain, Appr-1"-pase_like family. The macro domain is 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...; Region: Macro_Appr_pase_like; cd02908 644282008531 putative ADP-ribose binding site [chemical binding]; other site 644282008532 putative active site [active] 644282008533 MltA specific insert domain; Region: MltA; smart00925 644282008534 3D domain; Region: 3D; pfam06725 644282008535 Protein of unknown function DUF89; Region: DUF89; cl15397 644282008536 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 644282008537 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 644282008538 ATP binding site [chemical binding]; other site 644282008539 putative Mg++ binding site [ion binding]; other site 644282008540 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 644282008541 nucleotide binding region [chemical binding]; other site 644282008542 ATP-binding site [chemical binding]; other site 644282008543 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 644282008544 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 644282008545 active site 644282008546 substrate binding site [chemical binding]; other site 644282008547 catalytic site [active] 644282008548 Putative Fe-S cluster; Region: FeS; cl17515 644282008549 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 644282008550 Low molecular weight phosphatase family; Region: LMWPc; cd00115 644282008551 active site 644282008552 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 644282008553 dimerization interface [polypeptide binding]; other site 644282008554 putative DNA binding site [nucleotide binding]; other site 644282008555 putative Zn2+ binding site [ion binding]; other site 644282008556 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 644282008557 Low molecular weight phosphatase family; Region: LMWPc; cd00115 644282008558 active site 644282008559 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 644282008560 arsenical-resistance protein; Region: acr3; TIGR00832 644282008561 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 644282008562 catalytic residues [active] 644282008563 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 644282008564 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 644282008565 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 644282008566 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 644282008567 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 644282008568 dihydroorotase; Validated; Region: pyrC; PRK09357 644282008569 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 644282008570 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 644282008571 active site 644282008572 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 644282008573 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 644282008574 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 644282008575 ssDNA binding site; other site 644282008576 generic binding surface II; other site 644282008577 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 644282008578 ATP binding site [chemical binding]; other site 644282008579 putative Mg++ binding site [ion binding]; other site 644282008580 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 644282008581 nucleotide binding region [chemical binding]; other site 644282008582 ATP-binding site [chemical binding]; other site 644282008583 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 644282008584 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 644282008585 inhibitor-cofactor binding pocket; inhibition site 644282008586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282008587 catalytic residue [active] 644282008588 NAD-dependent deacetylase; Provisional; Region: PRK00481 644282008589 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 644282008590 NAD+ binding site [chemical binding]; other site 644282008591 substrate binding site [chemical binding]; other site 644282008592 Zn binding site [ion binding]; other site 644282008593 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 644282008594 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 644282008595 ATP-NAD kinase; Region: NAD_kinase; pfam01513 644282008596 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 644282008597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282008598 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 644282008599 phosphorylation site [posttranslational modification] 644282008600 dimer interface [polypeptide binding]; other site 644282008601 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 644282008602 ATP binding site [chemical binding]; other site 644282008603 Mg2+ binding site [ion binding]; other site 644282008604 G-X-G motif; other site 644282008605 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 644282008606 heme-binding site [chemical binding]; other site 644282008607 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 644282008608 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282008609 dimer interface [polypeptide binding]; other site 644282008610 phosphorylation site [posttranslational modification] 644282008611 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 644282008612 ATP binding site [chemical binding]; other site 644282008613 Mg2+ binding site [ion binding]; other site 644282008614 G-X-G motif; other site 644282008615 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 644282008616 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 644282008617 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 644282008618 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 644282008619 FeS/SAM binding site; other site 644282008620 TRAM domain; Region: TRAM; pfam01938 644282008621 Bifunctional nuclease; Region: DNase-RNase; pfam02577 644282008622 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 644282008623 active site 644282008624 hypothetical protein; Provisional; Region: PRK06361 644282008625 Flagellin N-methylase; Region: FliB; cl00497 644282008626 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644282008627 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 644282008628 periplasmic folding chaperone; Provisional; Region: PRK10788 644282008629 SurA N-terminal domain; Region: SurA_N_3; cl07813 644282008630 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 644282008631 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 644282008632 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 644282008633 homodimer interaction site [polypeptide binding]; other site 644282008634 cofactor binding site; other site 644282008635 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 644282008636 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 644282008637 cobyric acid synthase; Provisional; Region: PRK00784 644282008638 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 644282008639 catalytic triad [active] 644282008640 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282008641 cobalt transport protein CbiM; Validated; Region: PRK06265 644282008642 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 644282008643 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 644282008644 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 644282008645 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 644282008646 Walker A/P-loop; other site 644282008647 ATP binding site [chemical binding]; other site 644282008648 Q-loop/lid; other site 644282008649 ABC transporter signature motif; other site 644282008650 Walker B; other site 644282008651 D-loop; other site 644282008652 H-loop/switch region; other site 644282008653 SprA-related family; Region: SprA-related; pfam12118 644282008654 PilZ domain; Region: PilZ; pfam07238 644282008655 PAS fold; Region: PAS_3; pfam08447 644282008656 PAS domain S-box; Region: sensory_box; TIGR00229 644282008657 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 644282008658 putative active site [active] 644282008659 heme pocket [chemical binding]; other site 644282008660 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282008661 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 644282008662 putative active site [active] 644282008663 heme pocket [chemical binding]; other site 644282008664 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282008665 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 644282008666 putative active site [active] 644282008667 heme pocket [chemical binding]; other site 644282008668 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282008669 PAS domain; Region: PAS_8; pfam13188 644282008670 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 644282008671 dimer interface [polypeptide binding]; other site 644282008672 phosphorylation site [posttranslational modification] 644282008673 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 644282008674 ATP binding site [chemical binding]; other site 644282008675 G-X-G motif; other site 644282008676 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008678 active site 644282008679 phosphorylation site [posttranslational modification] 644282008680 intermolecular recognition site; other site 644282008681 dimerization interface [polypeptide binding]; other site 644282008682 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 644282008683 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 644282008684 putative homodimer interface [polypeptide binding]; other site 644282008685 putative active site pocket [active] 644282008686 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 644282008687 Acylphosphatase; Region: Acylphosphatase; pfam00708 644282008688 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 644282008689 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 644282008690 nucleotide binding pocket [chemical binding]; other site 644282008691 K-X-D-G motif; other site 644282008692 catalytic site [active] 644282008693 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 644282008694 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 644282008695 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 644282008696 DNA binding site [nucleotide binding] 644282008697 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 644282008698 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 644282008699 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 644282008700 active site 644282008701 substrate binding site [chemical binding]; other site 644282008702 metal binding site [ion binding]; metal-binding site 644282008703 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 644282008704 Domain of unknown function (DUF368); Region: DUF368; pfam04018 644282008705 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 644282008706 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 644282008707 Substrate binding site; other site 644282008708 Cupin domain; Region: Cupin_2; cl17218 644282008709 Bacitracin resistance protein BacA; Region: BacA; pfam02673 644282008710 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 644282008711 IHF dimer interface [polypeptide binding]; other site 644282008712 IHF - DNA interface [nucleotide binding]; other site 644282008713 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 644282008714 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282008715 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 644282008716 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 644282008717 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282008718 Zn2+ binding site [ion binding]; other site 644282008719 Mg2+ binding site [ion binding]; other site 644282008720 Sporulation related domain; Region: SPOR; pfam05036 644282008721 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 644282008722 intersubunit interface [polypeptide binding]; other site 644282008723 active site 644282008724 Zn2+ binding site [ion binding]; other site 644282008725 Cupin domain; Region: Cupin_2; cl17218 644282008726 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 644282008727 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 644282008728 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 644282008729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282008730 homodimer interface [polypeptide binding]; other site 644282008731 catalytic residue [active] 644282008732 cytidylate kinase; Provisional; Region: cmk; PRK00023 644282008733 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 644282008734 CMP-binding site; other site 644282008735 The sites determining sugar specificity; other site 644282008736 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 644282008737 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 644282008738 RNA binding site [nucleotide binding]; other site 644282008739 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 644282008740 RNA binding site [nucleotide binding]; other site 644282008741 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 644282008742 RNA binding site [nucleotide binding]; other site 644282008743 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 644282008744 RNA binding site [nucleotide binding]; other site 644282008745 S1_RPS1_repeat_ec5: 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_ec5; cd05690 644282008746 RNA binding site [nucleotide binding]; other site 644282008747 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 644282008748 RNA binding site [nucleotide binding]; other site 644282008749 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 644282008750 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 644282008751 tandem repeat interface [polypeptide binding]; other site 644282008752 oligomer interface [polypeptide binding]; other site 644282008753 active site residues [active] 644282008754 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 644282008755 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 644282008756 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644282008757 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 644282008758 ATP binding site [chemical binding]; other site 644282008759 Mg2+ binding site [ion binding]; other site 644282008760 G-X-G motif; other site 644282008761 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 644282008762 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 644282008763 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 644282008764 acyl-activating enzyme (AAE) consensus motif; other site 644282008765 putative AMP binding site [chemical binding]; other site 644282008766 putative active site [active] 644282008767 putative CoA binding site [chemical binding]; other site 644282008768 Rubredoxin [Energy production and conversion]; Region: COG1773 644282008769 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 644282008770 iron binding site [ion binding]; other site 644282008771 Cache domain; Region: Cache_1; pfam02743 644282008772 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282008773 dimer interface [polypeptide binding]; other site 644282008774 putative CheW interface [polypeptide binding]; other site 644282008775 DNA polymerase I; Provisional; Region: PRK05755 644282008776 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 644282008777 active site 644282008778 metal binding site 1 [ion binding]; metal-binding site 644282008779 putative 5' ssDNA interaction site; other site 644282008780 metal binding site 3; metal-binding site 644282008781 metal binding site 2 [ion binding]; metal-binding site 644282008782 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 644282008783 putative DNA binding site [nucleotide binding]; other site 644282008784 putative metal binding site [ion binding]; other site 644282008785 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 644282008786 active site 644282008787 catalytic site [active] 644282008788 substrate binding site [chemical binding]; other site 644282008789 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 644282008790 active site 644282008791 DNA binding site [nucleotide binding] 644282008792 catalytic site [active] 644282008793 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 644282008794 ATP synthase I chain; Region: ATP_synt_I; pfam03899 644282008795 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 644282008796 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 644282008797 ATP synthase subunit C; Region: ATP-synt_C; cl00466 644282008798 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 644282008799 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 644282008800 CoA binding domain; Region: CoA_binding; pfam02629 644282008801 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 644282008802 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 644282008803 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 644282008804 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 644282008805 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 644282008806 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 644282008807 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 644282008808 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 644282008809 catalytic residues [active] 644282008810 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 644282008811 dimerization interface [polypeptide binding]; other site 644282008812 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 644282008813 ATP binding site [chemical binding]; other site 644282008814 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 644282008815 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 644282008816 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 644282008817 Acylphosphatase; Region: Acylphosphatase; pfam00708 644282008818 HypF finger; Region: zf-HYPF; pfam07503 644282008819 HypF finger; Region: zf-HYPF; pfam07503 644282008820 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 644282008821 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 644282008822 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 644282008823 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 644282008824 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 644282008825 Transglycosylase; Region: Transgly; pfam00912 644282008826 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 644282008827 RNA binding site [nucleotide binding]; other site 644282008828 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 644282008829 FOG: CBS domain [General function prediction only]; Region: COG0517 644282008830 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 644282008831 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282008832 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 644282008833 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 644282008834 DEAD_2; Region: DEAD_2; pfam06733 644282008835 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 644282008836 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282008837 dimer interface [polypeptide binding]; other site 644282008838 putative CheW interface [polypeptide binding]; other site 644282008839 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282008840 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 644282008841 acyl-activating enzyme (AAE) consensus motif; other site 644282008842 putative AMP binding site [chemical binding]; other site 644282008843 putative active site [active] 644282008844 putative CoA binding site [chemical binding]; other site 644282008845 ANTAR domain; Region: ANTAR; pfam03861 644282008846 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 644282008847 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 644282008848 active site 644282008849 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 644282008850 active site 644282008851 FOG: CBS domain [General function prediction only]; Region: COG0517 644282008852 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 644282008853 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 644282008854 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 644282008855 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 644282008856 nucleophile elbow; other site 644282008857 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 644282008858 CoA binding domain; Region: CoA_binding_2; pfam13380 644282008859 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 644282008860 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 644282008861 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 644282008862 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 644282008863 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 644282008864 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 644282008865 active site 644282008866 dimer interface [polypeptide binding]; other site 644282008867 effector binding site; other site 644282008868 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 644282008869 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 644282008870 PspC domain; Region: PspC; pfam04024 644282008871 phage shock protein C; Region: phageshock_pspC; TIGR02978 644282008872 phage shock protein B; Region: phageshock_pspB; TIGR02976 644282008873 phage shock protein A; Region: phageshock_pspA; TIGR02977 644282008874 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 644282008875 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 644282008876 Walker A motif; other site 644282008877 ATP binding site [chemical binding]; other site 644282008878 Walker B motif; other site 644282008879 arginine finger; other site 644282008880 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 644282008881 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282008882 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282008883 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282008884 DNA binding residues [nucleotide binding] 644282008885 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 644282008886 active site 644282008887 cosubstrate binding site; other site 644282008888 substrate binding site [chemical binding]; other site 644282008889 catalytic site [active] 644282008890 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 644282008891 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282008892 putative ADP-binding pocket [chemical binding]; other site 644282008893 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282008894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008895 NAD(P) binding site [chemical binding]; other site 644282008896 active site 644282008897 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282008898 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 644282008899 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282008900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008901 NAD(P) binding site [chemical binding]; other site 644282008902 active site 644282008903 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 644282008904 active site 644282008905 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 644282008906 homodimer interface [polypeptide binding]; other site 644282008907 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 644282008908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008909 active site 644282008910 phosphorylation site [posttranslational modification] 644282008911 intermolecular recognition site; other site 644282008912 dimerization interface [polypeptide binding]; other site 644282008913 CheB methylesterase; Region: CheB_methylest; pfam01339 644282008914 Chemotaxis phosphatase CheX; Region: CheX; cl15816 644282008915 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008917 active site 644282008918 phosphorylation site [posttranslational modification] 644282008919 intermolecular recognition site; other site 644282008920 dimerization interface [polypeptide binding]; other site 644282008921 HDOD domain; Region: HDOD; pfam08668 644282008922 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282008923 Zn2+ binding site [ion binding]; other site 644282008924 Mg2+ binding site [ion binding]; other site 644282008925 CheD chemotactic sensory transduction; Region: CheD; cl00810 644282008926 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 644282008927 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 644282008928 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 644282008929 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 644282008930 putative CheA interaction surface; other site 644282008931 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 644282008932 putative binding surface; other site 644282008933 active site 644282008934 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 644282008935 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644282008936 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 644282008937 ATP binding site [chemical binding]; other site 644282008938 Mg2+ binding site [ion binding]; other site 644282008939 G-X-G motif; other site 644282008940 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 644282008941 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 644282008942 IHF dimer interface [polypeptide binding]; other site 644282008943 IHF - DNA interface [nucleotide binding]; other site 644282008944 cell division protein MraZ; Reviewed; Region: PRK00326 644282008945 MraZ protein; Region: MraZ; pfam02381 644282008946 MraZ protein; Region: MraZ; pfam02381 644282008947 MraW methylase family; Region: Methyltransf_5; cl17771 644282008948 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 644282008949 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 644282008950 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 644282008951 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 644282008952 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 644282008953 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 644282008954 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644282008955 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282008956 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282008957 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 644282008958 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644282008959 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282008960 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282008961 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 644282008962 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 644282008963 Mg++ binding site [ion binding]; other site 644282008964 putative catalytic motif [active] 644282008965 putative substrate binding site [chemical binding]; other site 644282008966 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 644282008967 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282008968 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282008969 cell division protein FtsW; Region: ftsW; TIGR02614 644282008970 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 644282008971 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 644282008972 active site 644282008973 homodimer interface [polypeptide binding]; other site 644282008974 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 644282008975 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644282008976 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282008977 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282008978 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 644282008979 FAD binding domain; Region: FAD_binding_4; pfam01565 644282008980 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 644282008981 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 644282008982 Cell division protein FtsQ; Region: FtsQ; pfam03799 644282008983 cell division protein FtsA; Region: ftsA; TIGR01174 644282008984 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 644282008985 nucleotide binding site [chemical binding]; other site 644282008986 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 644282008987 Cell division protein FtsA; Region: FtsA; pfam14450 644282008988 cell division protein FtsZ; Validated; Region: PRK09330 644282008989 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 644282008990 nucleotide binding site [chemical binding]; other site 644282008991 SulA interaction site; other site 644282008992 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 644282008993 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 644282008994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282008995 Coenzyme A binding pocket [chemical binding]; other site 644282008996 Putative transposon-encoded protein (DUF2080); Region: DUF2080; cl01376 644282008997 ParB-like nuclease domain; Region: ParBc; cl02129 644282008998 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 644282008999 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 644282009000 S-adenosylmethionine binding site [chemical binding]; other site 644282009001 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 644282009002 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 644282009003 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 644282009004 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 644282009005 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009006 dimer interface [polypeptide binding]; other site 644282009007 putative CheW interface [polypeptide binding]; other site 644282009008 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644282009009 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282009010 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282009011 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 644282009012 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 644282009013 PAS fold; Region: PAS_3; pfam08447 644282009014 putative active site [active] 644282009015 heme pocket [chemical binding]; other site 644282009016 PAS domain S-box; Region: sensory_box; TIGR00229 644282009017 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 644282009018 putative active site [active] 644282009019 heme pocket [chemical binding]; other site 644282009020 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 644282009021 histidine kinase; Provisional; Region: PRK13557 644282009022 putative active site [active] 644282009023 heme pocket [chemical binding]; other site 644282009024 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 644282009025 dimer interface [polypeptide binding]; other site 644282009026 phosphorylation site [posttranslational modification] 644282009027 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 644282009028 ATP binding site [chemical binding]; other site 644282009029 Mg2+ binding site [ion binding]; other site 644282009030 G-X-G motif; other site 644282009031 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009032 active site 644282009033 phosphorylation site [posttranslational modification] 644282009034 intermolecular recognition site; other site 644282009035 dimerization interface [polypeptide binding]; other site 644282009036 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 644282009037 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282009038 substrate binding pocket [chemical binding]; other site 644282009039 membrane-bound complex binding site; other site 644282009040 hinge residues; other site 644282009041 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282009042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282009043 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644282009044 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 644282009045 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 644282009046 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 644282009047 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282009048 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 644282009049 Cupin domain; Region: Cupin_2; cl17218 644282009050 TPR repeat; Region: TPR_11; pfam13414 644282009051 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282009052 TPR motif; other site 644282009053 binding surface 644282009054 flavodoxin, short chain; Region: flav_short; TIGR01753 644282009055 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282009056 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282009057 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282009058 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 644282009059 N-terminal plug; other site 644282009060 ligand-binding site [chemical binding]; other site 644282009061 Winged helix-turn helix; Region: HTH_29; pfam13551 644282009062 Helix-turn-helix domain; Region: HTH_28; pfam13518 644282009063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 644282009064 Integrase core domain; Region: rve; pfam00665 644282009065 Integrase core domain; Region: rve_3; pfam13683 644282009066 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 644282009067 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644282009068 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644282009069 Protein export membrane protein; Region: SecD_SecF; cl14618 644282009070 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644282009071 MarR family; Region: MarR; pfam01047 644282009072 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 644282009073 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 644282009074 putative dimer interface [polypeptide binding]; other site 644282009075 [2Fe-2S] cluster binding site [ion binding]; other site 644282009076 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 644282009077 dimer interface [polypeptide binding]; other site 644282009078 [2Fe-2S] cluster binding site [ion binding]; other site 644282009079 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 644282009080 SLBB domain; Region: SLBB; pfam10531 644282009081 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 644282009082 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282009083 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282009084 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 644282009085 catalytic loop [active] 644282009086 iron binding site [ion binding]; other site 644282009087 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282009088 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 644282009089 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 644282009090 thiosulfate reductase PhsA; Provisional; Region: PRK15488 644282009091 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 644282009092 putative [Fe4-S4] binding site [ion binding]; other site 644282009093 putative molybdopterin cofactor binding site [chemical binding]; other site 644282009094 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 644282009095 putative molybdopterin cofactor binding site; other site 644282009096 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 644282009097 putative CheA interaction surface; other site 644282009098 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009100 active site 644282009101 phosphorylation site [posttranslational modification] 644282009102 intermolecular recognition site; other site 644282009103 dimerization interface [polypeptide binding]; other site 644282009104 PAS fold; Region: PAS; pfam00989 644282009105 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 644282009106 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282009107 Walker A motif; other site 644282009108 ATP binding site [chemical binding]; other site 644282009109 Walker B motif; other site 644282009110 arginine finger; other site 644282009111 PAS domain S-box; Region: sensory_box; TIGR00229 644282009112 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 644282009113 putative active site [active] 644282009114 heme pocket [chemical binding]; other site 644282009115 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282009116 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 644282009117 dimer interface [polypeptide binding]; other site 644282009118 phosphorylation site [posttranslational modification] 644282009119 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 644282009120 ATP binding site [chemical binding]; other site 644282009121 Mg2+ binding site [ion binding]; other site 644282009122 G-X-G motif; other site 644282009123 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 644282009124 Pyruvate formate lyase; Region: PFL; pfam02901 644282009125 Flagellin N-methylase; Region: FliB; pfam03692 644282009126 Flagellin N-methylase; Region: FliB; cl00497 644282009127 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282009128 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 644282009129 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 644282009130 TPP-binding site [chemical binding]; other site 644282009131 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 644282009132 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 644282009133 dimer interface [polypeptide binding]; other site 644282009134 PYR/PP interface [polypeptide binding]; other site 644282009135 TPP binding site [chemical binding]; other site 644282009136 substrate binding site [chemical binding]; other site 644282009137 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282009138 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282009139 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009141 active site 644282009142 phosphorylation site [posttranslational modification] 644282009143 intermolecular recognition site; other site 644282009144 dimerization interface [polypeptide binding]; other site 644282009145 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 644282009146 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282009147 putative active site [active] 644282009148 heme pocket [chemical binding]; other site 644282009149 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 644282009150 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282009151 putative active site [active] 644282009152 heme pocket [chemical binding]; other site 644282009153 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282009154 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 644282009155 putative active site [active] 644282009156 heme pocket [chemical binding]; other site 644282009157 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 644282009158 ATP binding site [chemical binding]; other site 644282009159 Mg2+ binding site [ion binding]; other site 644282009160 G-X-G motif; other site 644282009161 xanthine permease; Region: pbuX; TIGR03173 644282009162 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282009163 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 644282009164 alanine racemase; Reviewed; Region: alr; PRK00053 644282009165 active site 644282009166 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644282009167 dimer interface [polypeptide binding]; other site 644282009168 substrate binding site [chemical binding]; other site 644282009169 catalytic residues [active] 644282009170 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 644282009171 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 644282009172 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 644282009173 active site 644282009174 HIGH motif; other site 644282009175 KMSK motif region; other site 644282009176 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 644282009177 tRNA binding surface [nucleotide binding]; other site 644282009178 anticodon binding site; other site 644282009179 Sporulation related domain; Region: SPOR; pfam05036 644282009180 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 644282009181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282009182 Coenzyme A binding pocket [chemical binding]; other site 644282009183 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 644282009184 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 644282009185 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282009186 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 644282009187 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 644282009188 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 644282009189 ATP binding site [chemical binding]; other site 644282009190 putative Mg++ binding site [ion binding]; other site 644282009191 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 644282009192 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 644282009193 nucleotide binding region [chemical binding]; other site 644282009194 ATP-binding site [chemical binding]; other site 644282009195 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 644282009196 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282009197 Uncharacterized membrane protein [Function unknown]; Region: COG5427; cl02250 644282009198 Uncharacterized membrane protein [Function unknown]; Region: COG5427; cl02250 644282009199 Uncharacterized membrane protein [Function unknown]; Region: COG5427; cl02250 644282009200 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 644282009201 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282009202 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 644282009203 active site 644282009204 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 644282009205 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 644282009206 heterotetramer interface [polypeptide binding]; other site 644282009207 active site pocket [active] 644282009208 cleavage site 644282009209 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 644282009210 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 644282009211 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 644282009212 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 644282009213 FAD binding pocket [chemical binding]; other site 644282009214 FAD binding motif [chemical binding]; other site 644282009215 phosphate binding motif [ion binding]; other site 644282009216 beta-alpha-beta structure motif; other site 644282009217 NAD binding pocket [chemical binding]; other site 644282009218 Iron coordination center [ion binding]; other site 644282009219 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 644282009220 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 644282009221 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 644282009222 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 644282009223 heterodimer interface [polypeptide binding]; other site 644282009224 active site 644282009225 FMN binding site [chemical binding]; other site 644282009226 homodimer interface [polypeptide binding]; other site 644282009227 substrate binding site [chemical binding]; other site 644282009228 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 644282009229 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 644282009230 G1 box; other site 644282009231 putative GEF interaction site [polypeptide binding]; other site 644282009232 GTP/Mg2+ binding site [chemical binding]; other site 644282009233 Switch I region; other site 644282009234 G2 box; other site 644282009235 G3 box; other site 644282009236 Switch II region; other site 644282009237 G4 box; other site 644282009238 G5 box; other site 644282009239 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 644282009240 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 644282009241 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 644282009242 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 644282009243 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 644282009244 YceG-like family; Region: YceG; pfam02618 644282009245 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 644282009246 dimerization interface [polypeptide binding]; other site 644282009247 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282009248 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282009249 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 644282009250 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 644282009251 Ligand binding site [chemical binding]; other site 644282009252 Electron transfer flavoprotein domain; Region: ETF; pfam01012 644282009253 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 644282009254 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 644282009255 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 644282009256 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 644282009257 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282009258 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 644282009259 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644282009260 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 644282009261 nucleophilic elbow; other site 644282009262 nucleophilic elbow; other site 644282009263 catalytic triad; other site 644282009264 catalytic triad; other site 644282009265 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 644282009266 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 644282009267 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 644282009268 nudix motif; other site 644282009269 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282009270 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 644282009271 substrate binding site [chemical binding]; other site 644282009272 oxyanion hole (OAH) forming residues; other site 644282009273 trimer interface [polypeptide binding]; other site 644282009274 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 644282009275 putative FMN binding site [chemical binding]; other site 644282009276 Uncharacterized conserved protein [Function unknown]; Region: COG3379 644282009277 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 644282009278 TPR repeat; Region: TPR_11; pfam13414 644282009279 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 644282009280 binding surface 644282009281 TPR motif; other site 644282009282 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 644282009283 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 644282009284 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 644282009285 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 644282009286 active site 644282009287 dimer interface [polypeptide binding]; other site 644282009288 hypothetical protein; Reviewed; Region: PRK00024 644282009289 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 644282009290 MPN+ (JAMM) motif; other site 644282009291 Zinc-binding site [ion binding]; other site 644282009292 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 644282009293 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 644282009294 FeS/SAM binding site; other site 644282009295 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282009296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009297 active site 644282009298 phosphorylation site [posttranslational modification] 644282009299 intermolecular recognition site; other site 644282009300 dimerization interface [polypeptide binding]; other site 644282009301 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 644282009302 TPR motif; other site 644282009303 binding surface 644282009304 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282009305 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 644282009306 binding surface 644282009307 TPR motif; other site 644282009308 TPR repeat; Region: TPR_11; pfam13414 644282009309 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 644282009310 binding surface 644282009311 TPR motif; other site 644282009312 TPR repeat; Region: TPR_11; pfam13414 644282009313 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 644282009314 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 644282009315 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 644282009316 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282009317 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644282009318 Ligand binding site; other site 644282009319 Putative Catalytic site; other site 644282009320 DXD motif; other site 644282009321 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 644282009322 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 644282009323 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 644282009324 FeS/SAM binding site; other site 644282009325 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 644282009326 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 644282009327 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 644282009328 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644282009329 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 644282009330 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 644282009331 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 644282009332 alphaNTD homodimer interface [polypeptide binding]; other site 644282009333 alphaNTD - beta interaction site [polypeptide binding]; other site 644282009334 alphaNTD - beta' interaction site [polypeptide binding]; other site 644282009335 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 644282009336 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 644282009337 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 644282009338 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 644282009339 RNA binding surface [nucleotide binding]; other site 644282009340 30S ribosomal protein S11; Validated; Region: PRK05309 644282009341 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 644282009342 30S ribosomal protein S13; Region: bact_S13; TIGR03631 644282009343 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 644282009344 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 644282009345 active site 644282009346 adenylate kinase; Reviewed; Region: adk; PRK00279 644282009347 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 644282009348 AMP-binding site [chemical binding]; other site 644282009349 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 644282009350 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 644282009351 SecY translocase; Region: SecY; pfam00344 644282009352 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 644282009353 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 644282009354 23S rRNA binding site [nucleotide binding]; other site 644282009355 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 644282009356 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 644282009357 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 644282009358 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 644282009359 5S rRNA interface [nucleotide binding]; other site 644282009360 23S rRNA interface [nucleotide binding]; other site 644282009361 L5 interface [polypeptide binding]; other site 644282009362 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 644282009363 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 644282009364 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 644282009365 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 644282009366 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 644282009367 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 644282009368 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 644282009369 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 644282009370 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 644282009371 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 644282009372 RNA binding site [nucleotide binding]; other site 644282009373 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 644282009374 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 644282009375 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 644282009376 putative translocon interaction site; other site 644282009377 signal recognition particle (SRP54) interaction site; other site 644282009378 L23 interface [polypeptide binding]; other site 644282009379 trigger factor interaction site; other site 644282009380 23S rRNA interface [nucleotide binding]; other site 644282009381 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 644282009382 23S rRNA interface [nucleotide binding]; other site 644282009383 5S rRNA interface [nucleotide binding]; other site 644282009384 putative antibiotic binding site [chemical binding]; other site 644282009385 L25 interface [polypeptide binding]; other site 644282009386 L27 interface [polypeptide binding]; other site 644282009387 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 644282009388 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 644282009389 G-X-X-G motif; other site 644282009390 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 644282009391 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 644282009392 putative translocon binding site; other site 644282009393 protein-rRNA interface [nucleotide binding]; other site 644282009394 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 644282009395 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 644282009396 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 644282009397 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 644282009398 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 644282009399 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 644282009400 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 644282009401 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 644282009402 elongation factor Tu; Reviewed; Region: PRK00049 644282009403 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 644282009404 G1 box; other site 644282009405 GEF interaction site [polypeptide binding]; other site 644282009406 GTP/Mg2+ binding site [chemical binding]; other site 644282009407 Switch I region; other site 644282009408 G2 box; other site 644282009409 G3 box; other site 644282009410 Switch II region; other site 644282009411 G4 box; other site 644282009412 G5 box; other site 644282009413 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 644282009414 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 644282009415 Antibiotic Binding Site [chemical binding]; other site 644282009416 elongation factor G; Reviewed; Region: PRK00007 644282009417 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 644282009418 G1 box; other site 644282009419 putative GEF interaction site [polypeptide binding]; other site 644282009420 GTP/Mg2+ binding site [chemical binding]; other site 644282009421 Switch I region; other site 644282009422 G2 box; other site 644282009423 G3 box; other site 644282009424 Switch II region; other site 644282009425 G4 box; other site 644282009426 G5 box; other site 644282009427 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 644282009428 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 644282009429 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 644282009430 30S ribosomal protein S7; Validated; Region: PRK05302 644282009431 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 644282009432 S17 interaction site [polypeptide binding]; other site 644282009433 S8 interaction site; other site 644282009434 16S rRNA interaction site [nucleotide binding]; other site 644282009435 streptomycin interaction site [chemical binding]; other site 644282009436 23S rRNA interaction site [nucleotide binding]; other site 644282009437 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 644282009438 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 644282009439 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 644282009440 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 644282009441 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 644282009442 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 644282009443 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 644282009444 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 644282009445 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 644282009446 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 644282009447 DNA binding site [nucleotide binding] 644282009448 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 644282009449 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 644282009450 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 644282009451 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 644282009452 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 644282009453 RPB11 interaction site [polypeptide binding]; other site 644282009454 RPB12 interaction site [polypeptide binding]; other site 644282009455 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 644282009456 RPB3 interaction site [polypeptide binding]; other site 644282009457 RPB1 interaction site [polypeptide binding]; other site 644282009458 RPB11 interaction site [polypeptide binding]; other site 644282009459 RPB10 interaction site [polypeptide binding]; other site 644282009460 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 644282009461 core dimer interface [polypeptide binding]; other site 644282009462 peripheral dimer interface [polypeptide binding]; other site 644282009463 L10 interface [polypeptide binding]; other site 644282009464 L11 interface [polypeptide binding]; other site 644282009465 putative EF-Tu interaction site [polypeptide binding]; other site 644282009466 putative EF-G interaction site [polypeptide binding]; other site 644282009467 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 644282009468 23S rRNA interface [nucleotide binding]; other site 644282009469 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 644282009470 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 644282009471 mRNA/rRNA interface [nucleotide binding]; other site 644282009472 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 644282009473 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 644282009474 23S rRNA interface [nucleotide binding]; other site 644282009475 L7/L12 interface [polypeptide binding]; other site 644282009476 putative thiostrepton binding site; other site 644282009477 L25 interface [polypeptide binding]; other site 644282009478 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 644282009479 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 644282009480 putative homodimer interface [polypeptide binding]; other site 644282009481 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 644282009482 heterodimer interface [polypeptide binding]; other site 644282009483 homodimer interface [polypeptide binding]; other site 644282009484 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 644282009485 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 644282009486 elongation factor Tu; Reviewed; Region: PRK00049 644282009487 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 644282009488 G1 box; other site 644282009489 GEF interaction site [polypeptide binding]; other site 644282009490 GTP/Mg2+ binding site [chemical binding]; other site 644282009491 Switch I region; other site 644282009492 G2 box; other site 644282009493 G3 box; other site 644282009494 Switch II region; other site 644282009495 G4 box; other site 644282009496 G5 box; other site 644282009497 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 644282009498 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 644282009499 Antibiotic Binding Site [chemical binding]; other site 644282009500 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282009501 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 644282009502 Walker A motif; other site 644282009503 ATP binding site [chemical binding]; other site 644282009504 Walker B motif; other site 644282009505 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 644282009506 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 644282009507 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 644282009508 FeS/SAM binding site; other site 644282009509 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 644282009510 MT-A70; Region: MT-A70; cl01947 644282009511 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 644282009512 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 644282009513 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 644282009514 dimer interface [polypeptide binding]; other site 644282009515 active site 644282009516 Schiff base residues; other site 644282009517 GTP-binding protein YchF; Reviewed; Region: PRK09601 644282009518 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 644282009519 G1 box; other site 644282009520 GTP/Mg2+ binding site [chemical binding]; other site 644282009521 Switch I region; other site 644282009522 G3 box; other site 644282009523 Switch II region; other site 644282009524 G4 box; other site 644282009525 G5 box; other site 644282009526 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 644282009527 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 644282009528 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 644282009529 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 644282009530 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282009531 substrate binding pocket [chemical binding]; other site 644282009532 membrane-bound complex binding site; other site 644282009533 hinge residues; other site 644282009534 PAS fold; Region: PAS_4; pfam08448 644282009535 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 644282009536 PAS domain; Region: PAS_9; pfam13426 644282009537 putative active site [active] 644282009538 heme pocket [chemical binding]; other site 644282009539 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282009540 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282009541 metal binding site [ion binding]; metal-binding site 644282009542 active site 644282009543 I-site; other site 644282009544 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 644282009545 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 644282009546 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 644282009547 dimer interface [polypeptide binding]; other site 644282009548 phosphorylation site [posttranslational modification] 644282009549 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 644282009550 ATP binding site [chemical binding]; other site 644282009551 Mg2+ binding site [ion binding]; other site 644282009552 G-X-G motif; other site 644282009553 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009555 active site 644282009556 phosphorylation site [posttranslational modification] 644282009557 intermolecular recognition site; other site 644282009558 dimerization interface [polypeptide binding]; other site 644282009559 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644282009560 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 644282009561 transmembrane helices; other site 644282009562 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009564 active site 644282009565 phosphorylation site [posttranslational modification] 644282009566 intermolecular recognition site; other site 644282009567 dimerization interface [polypeptide binding]; other site 644282009568 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 644282009569 FOG: CBS domain [General function prediction only]; Region: COG0517 644282009570 Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ValS; COG0525 644282009571 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282009572 4Fe-4S binding domain; Region: Fer4; pfam00037 644282009573 Moco binding site; other site 644282009574 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 644282009575 Oxidoreductase molybdopterin binding domain; Region: Oxidored_molyb; pfam00174 644282009576 metal coordination site [ion binding]; other site 644282009577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282009578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282009579 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 644282009580 classical (c) SDRs; Region: SDR_c; cd05233 644282009581 NAD(P) binding site [chemical binding]; other site 644282009582 active site 644282009583 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 644282009584 putative substrate translocation pore; other site 644282009585 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644282009586 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 644282009587 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 644282009588 NAD(P) binding site [chemical binding]; other site 644282009589 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 644282009590 ATP-NAD kinase; Region: NAD_kinase; pfam01513 644282009591 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 644282009592 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 644282009593 tetramer interface [polypeptide binding]; other site 644282009594 TPP-binding site [chemical binding]; other site 644282009595 heterodimer interface [polypeptide binding]; other site 644282009596 phosphorylation loop region [posttranslational modification] 644282009597 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 644282009598 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 644282009599 alpha subunit interface [polypeptide binding]; other site 644282009600 TPP binding site [chemical binding]; other site 644282009601 heterodimer interface [polypeptide binding]; other site 644282009602 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644282009603 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 644282009604 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 644282009605 E3 interaction surface; other site 644282009606 lipoyl attachment site [posttranslational modification]; other site 644282009607 e3 binding domain; Region: E3_binding; pfam02817 644282009608 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 644282009609 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 644282009610 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282009611 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282009612 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 644282009613 lipoyl synthase; Provisional; Region: PRK05481 644282009614 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 644282009615 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 644282009616 lipoyl attachment site [posttranslational modification]; other site 644282009617 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282009618 Cysteine-rich domain; Region: CCG; pfam02754 644282009619 Cysteine-rich domain; Region: CCG; pfam02754 644282009620 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 644282009621 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 644282009622 thiamine phosphate binding site [chemical binding]; other site 644282009623 active site 644282009624 pyrophosphate binding site [ion binding]; other site 644282009625 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 644282009626 substrate binding site [chemical binding]; other site 644282009627 multimerization interface [polypeptide binding]; other site 644282009628 ATP binding site [chemical binding]; other site 644282009629 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 644282009630 aminopeptidase N; Provisional; Region: pepN; PRK14015 644282009631 Zn binding site [ion binding]; other site 644282009632 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 644282009633 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 644282009634 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 644282009635 NAD(P) binding site [chemical binding]; other site 644282009636 homodimer interface [polypeptide binding]; other site 644282009637 substrate binding site [chemical binding]; other site 644282009638 active site 644282009639 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 644282009640 Mg++ binding site [ion binding]; other site 644282009641 putative catalytic motif [active] 644282009642 putative substrate binding site [chemical binding]; other site 644282009643 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644282009644 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282009645 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 644282009646 HlyD family secretion protein; Region: HlyD_3; pfam13437 644282009647 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 644282009648 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282009649 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 644282009650 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282009651 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 644282009652 Thioredoxin; Region: Thioredoxin_4; cl17273 644282009653 PAS domain; Region: PAS; smart00091 644282009654 PAS domain; Region: PAS_9; pfam13426 644282009655 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282009656 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 644282009657 ATP binding site [chemical binding]; other site 644282009658 Mg2+ binding site [ion binding]; other site 644282009659 G-X-G motif; other site 644282009660 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 644282009661 A2L zinc ribbon domain; Region: A2L_zn_ribbon; pfam08792 644282009662 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282009663 Zn2+ binding site [ion binding]; other site 644282009664 Mg2+ binding site [ion binding]; other site 644282009665 4Fe-4S binding domain; Region: Fer4; pfam00037 644282009666 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 644282009667 4Fe-4S binding domain; Region: Fer4; cl02805 644282009668 Transcriptional regulator; Region: Rrf2; pfam02082 644282009669 Rrf2 family protein; Region: rrf2_super; TIGR00738 644282009670 Uncharacterized conserved protein [Function unknown]; Region: COG1359 644282009671 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644282009672 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009673 dimer interface [polypeptide binding]; other site 644282009674 putative CheW interface [polypeptide binding]; other site 644282009675 HPP family; Region: HPP; pfam04982 644282009676 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 644282009677 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 644282009678 substrate binding pocket [chemical binding]; other site 644282009679 membrane-bound complex binding site; other site 644282009680 hinge residues; other site 644282009681 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 644282009682 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282009683 catalytic residue [active] 644282009684 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 644282009685 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 644282009686 G1 box; other site 644282009687 putative GEF interaction site [polypeptide binding]; other site 644282009688 GTP/Mg2+ binding site [chemical binding]; other site 644282009689 Switch I region; other site 644282009690 G2 box; other site 644282009691 G3 box; other site 644282009692 Switch II region; other site 644282009693 G4 box; other site 644282009694 G5 box; other site 644282009695 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 644282009696 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 644282009697 TPR repeat; Region: TPR_11; pfam13414 644282009698 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 644282009699 TPR motif; other site 644282009700 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282009701 TPR motif; other site 644282009702 binding surface 644282009703 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 644282009704 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 644282009705 homotrimer interaction site [polypeptide binding]; other site 644282009706 putative active site [active] 644282009707 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 644282009708 homotrimer interaction site [polypeptide binding]; other site 644282009709 putative active site [active] 644282009710 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644282009711 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282009712 active site 644282009713 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644282009714 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 644282009715 active site 644282009716 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 644282009717 Autotransporter beta-domain; Region: Autotransporter; pfam03797 644282009718 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 644282009719 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 644282009720 DNA binding residues [nucleotide binding] 644282009721 dimer interface [polypeptide binding]; other site 644282009722 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 644282009723 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 644282009724 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 644282009725 DNA binding site [nucleotide binding] 644282009726 active site 644282009727 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 644282009728 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 644282009729 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 644282009730 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 644282009731 Competence protein; Region: Competence; pfam03772 644282009732 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 644282009733 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 644282009734 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644282009735 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282009736 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 644282009737 substrate binding site [chemical binding]; other site 644282009738 oxyanion hole (OAH) forming residues; other site 644282009739 trimer interface [polypeptide binding]; other site 644282009740 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282009741 PAS domain; Region: PAS_9; pfam13426 644282009742 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644282009743 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 644282009744 DNA binding residues [nucleotide binding] 644282009745 dimerization interface [polypeptide binding]; other site 644282009746 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 644282009747 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 644282009748 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009749 dimer interface [polypeptide binding]; other site 644282009750 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 644282009751 putative CheW interface [polypeptide binding]; other site 644282009752 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 644282009753 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 644282009754 FeS/SAM binding site; other site 644282009755 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 644282009756 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 644282009757 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 644282009758 Protein of unknown function DUF116; Region: DUF116; cl00800 644282009759 glycine cleavage system protein H; Provisional; Region: PRK13380 644282009760 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 644282009761 lipoyl attachment site [posttranslational modification]; other site 644282009762 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 644282009763 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 644282009764 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282009765 catalytic residue [active] 644282009766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009767 dimer interface [polypeptide binding]; other site 644282009768 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 644282009769 putative CheW interface [polypeptide binding]; other site 644282009770 PilZ domain; Region: PilZ; pfam07238 644282009771 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 644282009772 iron-sulfur cluster [ion binding]; other site 644282009773 [2Fe-2S] cluster binding site [ion binding]; other site 644282009774 Methyltransferase domain; Region: Methyltransf_23; pfam13489 644282009775 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644282009776 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009777 dimer interface [polypeptide binding]; other site 644282009778 putative CheW interface [polypeptide binding]; other site 644282009779 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 644282009780 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 644282009781 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 644282009782 non-specific DNA binding site [nucleotide binding]; other site 644282009783 salt bridge; other site 644282009784 sequence-specific DNA binding site [nucleotide binding]; other site 644282009785 Cupin domain; Region: Cupin_2; pfam07883 644282009786 AMP-binding domain protein; Validated; Region: PRK08315 644282009787 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282009788 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 644282009789 acyl-activating enzyme (AAE) consensus motif; other site 644282009790 acyl-activating enzyme (AAE) consensus motif; other site 644282009791 putative AMP binding site [chemical binding]; other site 644282009792 putative active site [active] 644282009793 putative CoA binding site [chemical binding]; other site 644282009794 PAS domain S-box; Region: sensory_box; TIGR00229 644282009795 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 644282009796 putative active site [active] 644282009797 heme pocket [chemical binding]; other site 644282009798 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 644282009799 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282009800 putative active site [active] 644282009801 heme pocket [chemical binding]; other site 644282009802 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282009803 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 644282009804 putative active site [active] 644282009805 heme pocket [chemical binding]; other site 644282009806 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 644282009807 dimer interface [polypeptide binding]; other site 644282009808 phosphorylation site [posttranslational modification] 644282009809 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 644282009810 ATP binding site [chemical binding]; other site 644282009811 Mg2+ binding site [ion binding]; other site 644282009812 G-X-G motif; other site 644282009813 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009814 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009815 active site 644282009816 phosphorylation site [posttranslational modification] 644282009817 intermolecular recognition site; other site 644282009818 dimerization interface [polypeptide binding]; other site 644282009819 Bacterial SH3 domain; Region: SH3_3; pfam08239 644282009820 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 644282009821 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282009822 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 644282009823 DNA binding residues [nucleotide binding] 644282009824 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 644282009825 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 644282009826 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644282009827 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 644282009828 putative acyl-acceptor binding pocket; other site 644282009829 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644282009830 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 644282009831 transmembrane helices; other site 644282009832 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 644282009833 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 644282009834 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 644282009835 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 644282009836 putative trimer interface [polypeptide binding]; other site 644282009837 putative CoA binding site [chemical binding]; other site 644282009838 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 644282009839 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 644282009840 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 644282009841 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 644282009842 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 644282009843 dimer interface [polypeptide binding]; other site 644282009844 active site 644282009845 glycine-pyridoxal phosphate binding site [chemical binding]; other site 644282009846 folate binding site [chemical binding]; other site 644282009847 HD domain; Region: HD_3; pfam13023 644282009848 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 644282009849 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 644282009850 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 644282009851 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009853 active site 644282009854 phosphorylation site [posttranslational modification] 644282009855 intermolecular recognition site; other site 644282009856 dimerization interface [polypeptide binding]; other site 644282009857 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282009858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282009859 metal binding site [ion binding]; metal-binding site 644282009860 active site 644282009861 I-site; other site 644282009862 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 644282009863 active site 644282009864 oxyanion hole [active] 644282009865 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 644282009866 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 644282009867 S-adenosylmethionine binding site [chemical binding]; other site 644282009868 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 644282009869 putative trimer interface [polypeptide binding]; other site 644282009870 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 644282009871 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 644282009872 trimer interface [polypeptide binding]; other site 644282009873 active site 644282009874 substrate binding site [chemical binding]; other site 644282009875 putative CoA binding site [chemical binding]; other site 644282009876 CoA binding site [chemical binding]; other site 644282009877 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 644282009878 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 644282009879 active site 644282009880 dimer interface [polypeptide binding]; other site 644282009881 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 644282009882 Ligand Binding Site [chemical binding]; other site 644282009883 Molecular Tunnel; other site 644282009884 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 644282009885 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 644282009886 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 644282009887 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 644282009888 SLBB domain; Region: SLBB; pfam10531 644282009889 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 644282009890 Chain length determinant protein; Region: Wzz; cl15801 644282009891 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 644282009892 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 644282009893 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 644282009894 Walker A motif; other site 644282009895 ATP binding site [chemical binding]; other site 644282009896 Walker B motif; other site 644282009897 arginine finger; other site 644282009898 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 644282009899 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 644282009900 Bacterial sugar transferase; Region: Bac_transf; pfam02397 644282009901 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 644282009902 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 644282009903 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 644282009904 O-Antigen ligase; Region: Wzy_C; cl04850 644282009905 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 644282009906 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282009907 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 644282009908 acyl-activating enzyme (AAE) consensus motif; other site 644282009909 AMP binding site [chemical binding]; other site 644282009910 active site 644282009911 CoA binding site [chemical binding]; other site 644282009912 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 644282009913 binding surface 644282009914 TPR repeat; Region: TPR_11; pfam13414 644282009915 TPR motif; other site 644282009916 TPR repeat; Region: TPR_11; pfam13414 644282009917 TPR repeat; Region: TPR_11; pfam13414 644282009918 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 644282009919 binding surface 644282009920 TPR motif; other site 644282009921 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 644282009922 binding surface 644282009923 TPR motif; other site 644282009924 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 644282009925 binding surface 644282009926 TPR motif; other site 644282009927 TPR repeat; Region: TPR_11; pfam13414 644282009928 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 644282009929 binding surface 644282009930 TPR motif; other site 644282009931 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 644282009932 binding surface 644282009933 TPR motif; other site 644282009934 TPR repeat; Region: TPR_11; pfam13414 644282009935 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 644282009936 binding surface 644282009937 TPR motif; other site 644282009938 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 644282009939 TPR motif; other site 644282009940 TPR repeat; Region: TPR_11; pfam13414 644282009941 binding surface 644282009942 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 644282009943 binding surface 644282009944 TPR motif; other site 644282009945 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282009946 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 644282009947 active site 644282009948 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 644282009949 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282009950 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 644282009951 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 644282009952 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 644282009953 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282009954 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 644282009955 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 644282009956 putative active site [active] 644282009957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282009958 Coenzyme A binding pocket [chemical binding]; other site 644282009959 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282009960 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 644282009961 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282009962 substrate binding pocket [chemical binding]; other site 644282009963 membrane-bound complex binding site; other site 644282009964 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 644282009965 hinge residues; other site 644282009966 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 644282009967 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282009968 catalytic residue [active] 644282009969 spermidine synthase; Provisional; Region: PRK00811 644282009970 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 644282009971 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 644282009972 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 644282009973 IHF dimer interface [polypeptide binding]; other site 644282009974 IHF - DNA interface [nucleotide binding]; other site 644282009975 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 644282009976 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 644282009977 oligomer interface [polypeptide binding]; other site 644282009978 active site 644282009979 metal binding site [ion binding]; metal-binding site 644282009980 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 644282009981 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 644282009982 active site 644282009983 catalytic site [active] 644282009984 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 644282009985 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 644282009986 homodimer interface [polypeptide binding]; other site 644282009987 substrate-cofactor binding pocket; other site 644282009988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282009989 catalytic residue [active] 644282009990 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 644282009991 putative acyl-acceptor binding pocket; other site 644282009992 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 644282009993 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 644282009994 Winged helix-turn helix; Region: HTH_29; pfam13551 644282009995 Helix-turn-helix domain; Region: HTH_28; pfam13518 644282009996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 644282009997 Integrase core domain; Region: rve; pfam00665 644282009998 Integrase core domain; Region: rve_3; pfam13683 644282009999 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 644282010000 ResB-like family; Region: ResB; pfam05140 644282010001 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 644282010002 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 644282010003 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 644282010004 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 644282010005 putative active site [active] 644282010006 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 644282010007 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 644282010008 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 644282010009 active site 644282010010 tetramer interface [polypeptide binding]; other site 644282010011 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282010012 active site 644282010013 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 644282010014 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644282010015 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 644282010016 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 644282010017 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644282010018 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644282010019 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 644282010020 IMP binding site; other site 644282010021 dimer interface [polypeptide binding]; other site 644282010022 partial ornithine binding site; other site 644282010023 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 644282010024 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 644282010025 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 644282010026 catalytic site [active] 644282010027 subunit interface [polypeptide binding]; other site 644282010028 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 644282010029 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 644282010030 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282010031 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282010032 active site 644282010033 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 644282010034 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 644282010035 active site 644282010036 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 644282010037 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 644282010038 dimer interface [polypeptide binding]; other site 644282010039 active site 644282010040 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 644282010041 DUF35 OB-fold domain; Region: DUF35; pfam01796 644282010042 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 644282010043 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 644282010044 NAD binding site [chemical binding]; other site 644282010045 homodimer interface [polypeptide binding]; other site 644282010046 active site 644282010047 SCP-2 sterol transfer family; Region: SCP2; pfam02036 644282010048 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 644282010049 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 644282010050 active site 2 [active] 644282010051 active site 1 [active] 644282010052 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 644282010053 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 644282010054 NAD binding site [chemical binding]; other site 644282010055 homodimer interface [polypeptide binding]; other site 644282010056 active site 644282010057 SCP-2 sterol transfer family; Region: SCP2; pfam02036 644282010058 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282010059 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282010060 Coronavirus S2 glycoprotein; Region: Corona_S2; pfam01601 644282010061 Coronavirus S2 glycoprotein; Region: Corona_S2; pfam01601 644282010062 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 644282010063 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 644282010064 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 644282010065 protein binding surface [polypeptide binding]; other site 644282010066 HEAT repeats; Region: HEAT_2; pfam13646 644282010067 HEAT repeats; Region: HEAT_2; pfam13646 644282010068 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282010069 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 644282010070 Walker A/P-loop; other site 644282010071 ATP binding site [chemical binding]; other site 644282010072 Q-loop/lid; other site 644282010073 ABC transporter signature motif; other site 644282010074 Walker B; other site 644282010075 D-loop; other site 644282010076 H-loop/switch region; other site 644282010077 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644282010078 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 644282010079 Walker A/P-loop; other site 644282010080 ATP binding site [chemical binding]; other site 644282010081 Q-loop/lid; other site 644282010082 ABC transporter signature motif; other site 644282010083 Walker B; other site 644282010084 D-loop; other site 644282010085 H-loop/switch region; other site 644282010086 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 644282010087 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 644282010088 TM-ABC transporter signature motif; other site 644282010089 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 644282010090 TM-ABC transporter signature motif; other site 644282010091 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 644282010092 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 644282010093 putative ligand binding site [chemical binding]; other site 644282010094 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 644282010095 L-asparaginase II; Region: Asparaginase_II; pfam06089 644282010096 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 644282010097 Bacterial PH domain; Region: DUF304; cl01348 644282010098 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 644282010099 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 644282010100 CPxP motif; other site 644282010101 DsrE/DsrF-like family; Region: DrsE; cl00672 644282010102 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 644282010103 Methyltransferase domain; Region: Methyltransf_23; pfam13489 644282010104 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 644282010105 S-adenosylmethionine binding site [chemical binding]; other site 644282010106 NIL domain; Region: NIL; pfam09383 644282010107 4Fe-4S binding domain; Region: Fer4; cl02805 644282010108 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282010109 Domain of unknown function DUF39; Region: DUF39; pfam01837 644282010110 Predicted transcriptional regulator [Transcription]; Region: COG1959 644282010111 Transcriptional regulator; Region: Rrf2; cl17282 644282010112 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 644282010113 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 644282010114 Ligand Binding Site [chemical binding]; other site 644282010115 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 644282010116 SmpB-tmRNA interface; other site 644282010117 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 644282010118 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 644282010119 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 644282010120 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 644282010121 Predicted methyltransferases [General function prediction only]; Region: COG0313 644282010122 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 644282010123 putative SAM binding site [chemical binding]; other site 644282010124 putative homodimer interface [polypeptide binding]; other site 644282010125 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 644282010126 regulatory protein interface [polypeptide binding]; other site 644282010127 active site 644282010128 regulatory phosphorylation site [posttranslational modification]; other site 644282010129 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 644282010130 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 644282010131 RNA/DNA hybrid binding site [nucleotide binding]; other site 644282010132 active site 644282010133 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 644282010134 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 644282010135 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 644282010136 RimM N-terminal domain; Region: RimM; pfam01782 644282010137 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 644282010138 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 644282010139 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 644282010140 signal recognition particle protein; Provisional; Region: PRK10867 644282010141 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 644282010142 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 644282010143 P loop; other site 644282010144 GTP binding site [chemical binding]; other site 644282010145 Signal peptide binding domain; Region: SRP_SPB; pfam02978 644282010146 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 644282010147 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 644282010148 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 644282010149 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 644282010150 Walker A/P-loop; other site 644282010151 ATP binding site [chemical binding]; other site 644282010152 Q-loop/lid; other site 644282010153 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 644282010154 ABC transporter signature motif; other site 644282010155 Walker B; other site 644282010156 D-loop; other site 644282010157 H-loop/switch region; other site 644282010158 selenophosphate synthetase; Provisional; Region: PRK00943 644282010159 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 644282010160 dimerization interface [polypeptide binding]; other site 644282010161 putative ATP binding site [chemical binding]; other site 644282010162 Soluble P-type ATPase [General function prediction only]; Region: COG4087 644282010163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644282010164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 644282010165 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 644282010166 putative dimerization interface [polypeptide binding]; other site 644282010167 Creatinine amidohydrolase; Region: Creatininase; pfam02633 644282010168 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 644282010169 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 644282010170 dimerization interface [polypeptide binding]; other site 644282010171 PAS domain S-box; Region: sensory_box; TIGR00229 644282010172 PAS domain; Region: PAS; smart00091 644282010173 putative active site [active] 644282010174 heme pocket [chemical binding]; other site 644282010175 PAS domain S-box; Region: sensory_box; TIGR00229 644282010176 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 644282010177 putative active site [active] 644282010178 heme pocket [chemical binding]; other site 644282010179 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 644282010180 PAS domain; Region: PAS_9; pfam13426 644282010181 putative active site [active] 644282010182 heme pocket [chemical binding]; other site 644282010183 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282010184 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282010185 metal binding site [ion binding]; metal-binding site 644282010186 active site 644282010187 I-site; other site 644282010188 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282010189 Zn2+ binding site [ion binding]; other site 644282010190 Mg2+ binding site [ion binding]; other site 644282010191 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282010192 Zn2+ binding site [ion binding]; other site 644282010193 Mg2+ binding site [ion binding]; other site 644282010194 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 644282010195 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 644282010196 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 644282010197 Cache domain; Region: Cache_1; pfam02743 644282010198 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 644282010199 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 644282010200 dimerization interface [polypeptide binding]; other site 644282010201 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 644282010202 NMT1/THI5 like; Region: NMT1; pfam09084 644282010203 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 644282010204 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 644282010205 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 644282010206 glutamine binding [chemical binding]; other site 644282010207 catalytic triad [active] 644282010208 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 644282010209 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 644282010210 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 644282010211 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 644282010212 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 644282010213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282010214 catalytic residue [active] 644282010215 acetyl-CoA synthetase; Provisional; Region: PRK00174 644282010216 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 644282010217 active site 644282010218 CoA binding site [chemical binding]; other site 644282010219 acyl-activating enzyme (AAE) consensus motif; other site 644282010220 AMP binding site [chemical binding]; other site 644282010221 acetate binding site [chemical binding]; other site 644282010222 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 644282010223 Ca2+ binding site [ion binding]; other site 644282010224 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 644282010225 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 644282010226 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 644282010227 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 644282010228 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282010229 DNA binding residues [nucleotide binding] 644282010230 putative dimer interface [polypeptide binding]; other site 644282010231 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282010232 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 644282010233 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 644282010234 active site 644282010235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282010236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 644282010237 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 644282010238 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 644282010239 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 644282010240 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 644282010241 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282010242 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282010243 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 644282010244 acyl-activating enzyme (AAE) consensus motif; other site 644282010245 acyl-activating enzyme (AAE) consensus motif; other site 644282010246 AMP binding site [chemical binding]; other site 644282010247 active site 644282010248 CoA binding site [chemical binding]; other site 644282010249 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282010250 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282010251 active site 644282010252 lipid-transfer protein; Provisional; Region: PRK08256 644282010253 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 644282010254 active site 644282010255 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 644282010256 classical (c) SDRs; Region: SDR_c; cd05233 644282010257 NAD(P) binding site [chemical binding]; other site 644282010258 active site 644282010259 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 644282010260 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 644282010261 TPP-binding site [chemical binding]; other site 644282010262 putative dimer interface [polypeptide binding]; other site 644282010263 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 644282010264 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 644282010265 dimer interface [polypeptide binding]; other site 644282010266 PYR/PP interface [polypeptide binding]; other site 644282010267 TPP binding site [chemical binding]; other site 644282010268 substrate binding site [chemical binding]; other site 644282010269 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 644282010270 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 644282010271 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282010272 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 644282010273 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 644282010274 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 644282010275 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 644282010276 TPR repeat; Region: TPR_11; pfam13414 644282010277 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 644282010278 binding surface 644282010279 TPR motif; other site 644282010280 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282010281 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 644282010282 TPR motif; other site 644282010283 TPR repeat; Region: TPR_11; pfam13414 644282010284 binding surface 644282010285 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282010286 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 644282010287 dimer interface [polypeptide binding]; other site 644282010288 phosphorylation site [posttranslational modification] 644282010289 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 644282010290 ATP binding site [chemical binding]; other site 644282010291 Mg2+ binding site [ion binding]; other site 644282010292 G-X-G motif; other site 644282010293 TPR repeat; Region: TPR_11; pfam13414 644282010294 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 644282010295 binding surface 644282010296 TPR motif; other site 644282010297 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282010298 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 644282010299 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 644282010300 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 644282010301 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 644282010302 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 644282010303 glutamine binding [chemical binding]; other site 644282010304 catalytic triad [active] 644282010305 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 644282010306 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 644282010307 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 644282010308 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 644282010309 putative active site [active] 644282010310 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 644282010311 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 644282010312 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 644282010313 shikimate binding site; other site 644282010314 NAD(P) binding site [chemical binding]; other site 644282010315 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 644282010316 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK13951 644282010317 ADP binding site [chemical binding]; other site 644282010318 magnesium binding site [ion binding]; other site 644282010319 putative shikimate binding site; other site 644282010320 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 644282010321 active site 644282010322 dimer interface [polypeptide binding]; other site 644282010323 metal binding site [ion binding]; metal-binding site 644282010324 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 644282010325 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 644282010326 Tetramer interface [polypeptide binding]; other site 644282010327 active site 644282010328 FMN-binding site [chemical binding]; other site 644282010329 Dehydroquinase class II; Region: DHquinase_II; pfam01220 644282010330 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 644282010331 active site 644282010332 trimer interface [polypeptide binding]; other site 644282010333 dimer interface [polypeptide binding]; other site 644282010334 deoxyribose-phosphate aldolase; Provisional; Region: PRK00507 644282010335 catalytic residue [active] 644282010336 Uncharacterized conserved protein [Function unknown]; Region: COG3379 644282010337 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 644282010338 primosome assembly protein PriA; Validated; Region: PRK05580 644282010339 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 644282010340 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 644282010341 PYR/PP interface [polypeptide binding]; other site 644282010342 dimer interface [polypeptide binding]; other site 644282010343 TPP binding site [chemical binding]; other site 644282010344 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 644282010345 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 644282010346 TPP-binding site [chemical binding]; other site 644282010347 4Fe-4S binding domain; Region: Fer4_6; pfam12837 644282010348 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282010349 Nitroreductase family; Region: Nitroreductase; pfam00881 644282010350 FMN binding site [chemical binding]; other site 644282010351 dimer interface [polypeptide binding]; other site 644282010352 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 644282010353 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 644282010354 putative dimer interface [polypeptide binding]; other site 644282010355 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 644282010356 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644282010357 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 644282010358 Walker A motif; other site 644282010359 ATP binding site [chemical binding]; other site 644282010360 Walker B motif; other site 644282010361 arginine finger; other site 644282010362 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 644282010363 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 644282010364 ligand-binding site [chemical binding]; other site 644282010365 Uncharacterized conserved protein [Function unknown]; Region: COG3379 644282010366 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 644282010367 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 644282010368 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 644282010369 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 644282010370 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 644282010371 active site 644282010372 FMN binding site [chemical binding]; other site 644282010373 substrate binding site [chemical binding]; other site 644282010374 putative catalytic residue [active] 644282010375 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 644282010376 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 644282010377 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 644282010378 trimer interface [polypeptide binding]; other site 644282010379 active site 644282010380 substrate binding site [chemical binding]; other site 644282010381 CoA binding site [chemical binding]; other site 644282010382 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 644282010383 active site 644282010384 oxyanion hole [active] 644282010385 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 644282010386 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 644282010387 Walker A motif; other site 644282010388 ATP binding site [chemical binding]; other site 644282010389 Walker B motif; other site 644282010390 arginine finger; other site 644282010391 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 644282010392 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 644282010393 RuvA N terminal domain; Region: RuvA_N; pfam01330 644282010394 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 644282010395 active site 644282010396 putative DNA-binding cleft [nucleotide binding]; other site 644282010397 dimer interface [polypeptide binding]; other site 644282010398 hypothetical protein; Validated; Region: PRK00110 644282010399 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 644282010400 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 644282010401 S-adenosylmethionine binding site [chemical binding]; other site 644282010402 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 644282010403 CoenzymeA binding site [chemical binding]; other site 644282010404 subunit interaction site [polypeptide binding]; other site 644282010405 PHB binding site; other site 644282010406 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282010407 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 644282010408 putative NAD(P) binding site [chemical binding]; other site 644282010409 active site 644282010410 putative substrate binding site [chemical binding]; other site 644282010411 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 644282010412 Clp amino terminal domain; Region: Clp_N; pfam02861 644282010413 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 644282010414 Walker A motif; other site 644282010415 ATP binding site [chemical binding]; other site 644282010416 Walker B motif; other site 644282010417 arginine finger; other site 644282010418 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 644282010419 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 644282010420 Walker A motif; other site 644282010421 ATP binding site [chemical binding]; other site 644282010422 Walker B motif; other site 644282010423 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 644282010424 Uncharacterized glycoside hydrolase family 99-like domain; Region: GH99_GH71_like_1; cd11578 644282010425 putative ligand binding site [chemical binding]; other site 644282010426 putative catalytic site [active] 644282010427 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 644282010428 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644282010429 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644282010430 Ligand binding site; other site 644282010431 Putative Catalytic site; other site 644282010432 DXD motif; other site 644282010433 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 644282010434 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 644282010435 S-adenosylmethionine binding site [chemical binding]; other site 644282010436 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 644282010437 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 644282010438 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282010439 active site 644282010440 HIGH motif; other site 644282010441 nucleotide binding site [chemical binding]; other site 644282010442 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 644282010443 KMSKS motif; other site 644282010444 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 644282010445 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 644282010446 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 644282010447 DNA binding residues [nucleotide binding] 644282010448 putative dimer interface [polypeptide binding]; other site 644282010449 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282010450 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282010451 active site 644282010452 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282010453 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 644282010454 active site 644282010455 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 644282010456 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 644282010457 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 644282010458 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644282010459 ATP-grasp domain; Region: ATP-grasp_4; cl17255 644282010460 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 644282010461 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282010462 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 644282010463 acyl-activating enzyme (AAE) consensus motif; other site 644282010464 putative AMP binding site [chemical binding]; other site 644282010465 putative active site [active] 644282010466 putative CoA binding site [chemical binding]; other site 644282010467 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 644282010468 carboxyltransferase (CT) interaction site; other site 644282010469 biotinylation site [posttranslational modification]; other site 644282010470 enoyl-CoA hydratase; Provisional; Region: PRK05995 644282010471 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 644282010472 substrate binding site [chemical binding]; other site 644282010473 oxyanion hole (OAH) forming residues; other site 644282010474 trimer interface [polypeptide binding]; other site 644282010475 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 644282010476 isovaleryl-CoA dehydrogenase; Region: PLN02519 644282010477 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282010478 active site 644282010479 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 644282010480 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 644282010481 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 644282010482 FeS/SAM binding site; other site 644282010483 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 644282010484 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 644282010485 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 644282010486 dimer interface [polypeptide binding]; other site 644282010487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282010488 catalytic residue [active] 644282010489 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 644282010490 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282010491 active site 644282010492 HIGH motif; other site 644282010493 nucleotide binding site [chemical binding]; other site 644282010494 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282010495 active site 644282010496 KMSKS motif; other site 644282010497 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 644282010498 tRNA binding surface [nucleotide binding]; other site 644282010499 anticodon binding site; other site 644282010500 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 644282010501 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 644282010502 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 644282010503 Ligand Binding Site [chemical binding]; other site 644282010504 TIGR00269 family protein; Region: TIGR00269 644282010505 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 644282010506 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644282010507 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 644282010508 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644282010509 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 644282010510 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644282010511 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 644282010512 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282010513 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644282010514 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 644282010515 DNA binding residues [nucleotide binding] 644282010516 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 644282010517 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282010518 dimer interface [polypeptide binding]; other site 644282010519 putative CheW interface [polypeptide binding]; other site 644282010520 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 644282010521 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282010522 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 644282010523 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 644282010524 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282010525 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 644282010526 Mor transcription activator family; Region: Mor; cl02360 644282010527 Phage terminase small subunit; Region: Phage_terminase; pfam10668 644282010528 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 644282010529 Phage portal protein; Region: Phage_portal; pfam04860 644282010530 Phage-related protein [Function unknown]; Region: COG4695; cl01923 644282010531 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 644282010532 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282010533 Phage capsid family; Region: Phage_capsid; pfam05065 644282010534 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 644282010535 oligomerization interface [polypeptide binding]; other site 644282010536 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 644282010537 seryl-tRNA synthetase; Provisional; Region: PRK05431 644282010538 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 644282010539 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 644282010540 dimer interface [polypeptide binding]; other site 644282010541 active site 644282010542 motif 1; other site 644282010543 motif 2; other site 644282010544 motif 3; other site 644282010545 GAF domain; Region: GAF; cl17456 644282010546 GAF domain; Region: GAF_2; pfam13185 644282010547 GAF domain; Region: GAF_3; pfam13492 644282010548 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 644282010549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282010550 metal binding site [ion binding]; metal-binding site 644282010551 active site 644282010552 I-site; other site 644282010553 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644282010554 GAF domain; Region: GAF; pfam01590 644282010555 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282010556 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 644282010557 putative active site [active] 644282010558 heme pocket [chemical binding]; other site 644282010559 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 644282010560 dimer interface [polypeptide binding]; other site 644282010561 phosphorylation site [posttranslational modification] 644282010562 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 644282010563 ATP binding site [chemical binding]; other site 644282010564 Mg2+ binding site [ion binding]; other site 644282010565 G-X-G motif; other site 644282010566 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 644282010567 PAS domain S-box; Region: sensory_box; TIGR00229 644282010568 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 644282010569 putative active site [active] 644282010570 heme pocket [chemical binding]; other site 644282010571 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 644282010572 dimer interface [polypeptide binding]; other site 644282010573 phosphorylation site [posttranslational modification] 644282010574 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282010575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282010576 active site 644282010577 phosphorylation site [posttranslational modification] 644282010578 intermolecular recognition site; other site 644282010579 dimerization interface [polypeptide binding]; other site 644282010580 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 644282010581 Walker A motif; other site 644282010582 ATP binding site [chemical binding]; other site 644282010583 Walker B motif; other site 644282010584 arginine finger; other site 644282010585 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 644282010586 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 644282010587 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 644282010588 HSP70 interaction site [polypeptide binding]; other site 644282010589 CHASE2 domain; Region: CHASE2; pfam05226 644282010590 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 644282010591 cyclase homology domain; Region: CHD; cd07302 644282010592 nucleotidyl binding site; other site 644282010593 metal binding site [ion binding]; metal-binding site 644282010594 dimer interface [polypeptide binding]; other site 644282010595 Peptidase family M48; Region: Peptidase_M48; cl12018 644282010596 Bacterial SH3 domain; Region: SH3_4; pfam06347 644282010597 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 644282010598 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 644282010599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282010600 Zn2+ binding site [ion binding]; other site 644282010601 Mg2+ binding site [ion binding]; other site 644282010602 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 644282010603 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 644282010604 ABC-2 type transporter; Region: ABC2_membrane; pfam01061