-- dump date 20120504_143227 -- 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 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282000004 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 644282000005 DnaA box-binding interface [nucleotide binding]; other site 644282000006 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 644282000007 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 644282000008 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 644282000009 acyl-CoA synthetase; Validated; Region: PRK08316 644282000010 AMP-binding enzyme; Region: AMP-binding; cl15778 644282000011 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282000012 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282000013 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 644282000014 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 644282000015 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 644282000016 dimer interface [polypeptide binding]; other site 644282000017 phosphorylation site [posttranslational modification] 644282000018 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 644282000019 ATP binding site [chemical binding]; other site 644282000020 Mg2+ binding site [ion binding]; other site 644282000021 G-X-G motif; other site 644282000022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000023 active site 644282000024 phosphorylation site [posttranslational modification] 644282000025 intermolecular recognition site; other site 644282000026 dimerization interface [polypeptide binding]; other site 644282000027 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000028 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000029 active site 644282000030 phosphorylation site [posttranslational modification] 644282000031 intermolecular recognition site; other site 644282000032 dimerization interface [polypeptide binding]; other site 644282000033 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 644282000034 Proline dehydrogenase; Region: Pro_dh; cl03282 644282000035 Sulphur transport; Region: Sulf_transp; cl01018 644282000036 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 644282000037 CPxP motif; other site 644282000038 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 644282000039 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 644282000040 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 644282000041 AMP-binding enzyme; Region: AMP-binding; cl15778 644282000042 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 644282000043 diiron binding motif [ion binding]; other site 644282000044 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 644282000045 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 644282000046 putative substrate translocation pore; other site 644282000047 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 644282000048 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 644282000049 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 644282000050 PAS domain; Region: PAS_9; pfam13426 644282000051 GAF domain; Region: GAF_2; pfam13185 644282000052 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 644282000053 dimer interface [polypeptide binding]; other site 644282000054 phosphorylation site [posttranslational modification] 644282000055 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 644282000056 ATP binding site [chemical binding]; other site 644282000057 Mg2+ binding site [ion binding]; other site 644282000058 G-X-G motif; other site 644282000059 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000061 active site 644282000062 phosphorylation site [posttranslational modification] 644282000063 intermolecular recognition site; other site 644282000064 dimerization interface [polypeptide binding]; other site 644282000065 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282000066 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 644282000067 Protein export membrane protein; Region: SecD_SecF; cl14618 644282000068 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282000069 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282000070 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282000071 putative cation:proton antiport protein; Provisional; Region: PRK10669 644282000072 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 644282000073 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282000074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000075 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282000076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000077 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282000078 NAD(P) binding site [chemical binding]; other site 644282000079 active site 644282000080 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 644282000081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000082 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 644282000083 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 644282000084 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 644282000085 dimerization interface [polypeptide binding]; other site 644282000086 active site 644282000087 Quinolinate synthetase A protein; Region: NadA; cl00420 644282000088 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 644282000089 Helix-turn-helix domains; Region: HTH; cl00088 644282000090 3H domain; Region: 3H; pfam02829 644282000091 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 644282000092 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 644282000093 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282000094 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282000095 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 644282000096 putative active site [active] 644282000097 heme pocket [chemical binding]; other site 644282000098 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 644282000099 dimer interface [polypeptide binding]; other site 644282000100 phosphorylation site [posttranslational modification] 644282000101 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 644282000102 ATP binding site [chemical binding]; other site 644282000103 Mg2+ binding site [ion binding]; other site 644282000104 G-X-G motif; other site 644282000105 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282000106 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282000107 active site 644282000108 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 644282000109 substrate binding site [chemical binding]; other site 644282000110 oxyanion hole (OAH) forming residues; other site 644282000111 trimer interface [polypeptide binding]; other site 644282000112 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 644282000113 Transcriptional regulators [Transcription]; Region: FadR; COG2186 644282000114 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644282000115 DNA-binding site [nucleotide binding]; DNA binding site 644282000116 FCD domain; Region: FCD; cl11656 644282000117 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 644282000118 dimerization interface [polypeptide binding]; other site 644282000119 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 644282000120 dimer interface [polypeptide binding]; other site 644282000121 phosphorylation site [posttranslational modification] 644282000122 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 644282000123 ATP binding site [chemical binding]; other site 644282000124 G-X-G motif; other site 644282000125 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282000126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000127 active site 644282000128 phosphorylation site [posttranslational modification] 644282000129 intermolecular recognition site; other site 644282000130 dimerization interface [polypeptide binding]; other site 644282000131 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 644282000132 Walker A motif; other site 644282000133 ATP binding site [chemical binding]; other site 644282000134 Walker B motif; other site 644282000135 arginine finger; other site 644282000136 Helix-turn-helix domains; Region: HTH; cl00088 644282000137 Sulfate transporter family; Region: Sulfate_transp; cl15842 644282000138 Sulfate transporter family; Region: Sulfate_transp; cl15842 644282000139 Sulfate transporter family; Region: Sulfate_transp; cl15842 644282000140 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 644282000141 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282000142 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000144 active site 644282000145 phosphorylation site [posttranslational modification] 644282000146 intermolecular recognition site; other site 644282000147 dimerization interface [polypeptide binding]; other site 644282000148 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282000149 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 644282000150 dimer interface [polypeptide binding]; other site 644282000151 phosphorylation site [posttranslational modification] 644282000152 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 644282000153 ATP binding site [chemical binding]; other site 644282000154 Mg2+ binding site [ion binding]; other site 644282000155 G-X-G motif; other site 644282000156 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000158 active site 644282000159 phosphorylation site [posttranslational modification] 644282000160 intermolecular recognition site; other site 644282000161 dimerization interface [polypeptide binding]; other site 644282000162 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000164 active site 644282000165 phosphorylation site [posttranslational modification] 644282000166 intermolecular recognition site; other site 644282000167 dimerization interface [polypeptide binding]; other site 644282000168 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 644282000169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000170 active site 644282000171 phosphorylation site [posttranslational modification] 644282000172 intermolecular recognition site; other site 644282000173 dimerization interface [polypeptide binding]; other site 644282000174 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282000175 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000177 active site 644282000178 phosphorylation site [posttranslational modification] 644282000179 intermolecular recognition site; other site 644282000180 dimerization interface [polypeptide binding]; other site 644282000181 HDOD domain; Region: HDOD; pfam08668 644282000182 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282000183 sensory histidine kinase AtoS; Provisional; Region: PRK11360 644282000184 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 644282000185 PAS domain; Region: PAS_9; pfam13426 644282000186 putative active site [active] 644282000187 heme pocket [chemical binding]; other site 644282000188 PAS domain S-box; Region: sensory_box; TIGR00229 644282000189 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 644282000190 putative active site [active] 644282000191 heme pocket [chemical binding]; other site 644282000192 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 644282000193 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 644282000194 ATP binding site [chemical binding]; other site 644282000195 Mg2+ binding site [ion binding]; other site 644282000196 G-X-G motif; other site 644282000197 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282000198 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000199 active site 644282000200 phosphorylation site [posttranslational modification] 644282000201 intermolecular recognition site; other site 644282000202 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 644282000203 PAS domain; Region: PAS_9; pfam13426 644282000204 PAS domain S-box; Region: sensory_box; TIGR00229 644282000205 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 644282000206 putative active site [active] 644282000207 heme pocket [chemical binding]; other site 644282000208 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 644282000209 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 644282000210 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 644282000211 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 644282000212 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 644282000213 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 644282000214 S-adenosylmethionine binding site [chemical binding]; other site 644282000215 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 644282000216 Arginase family; Region: Arginase; cl00306 644282000217 PAS domain S-box; Region: sensory_box; TIGR00229 644282000218 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 644282000219 putative active site [active] 644282000220 heme pocket [chemical binding]; other site 644282000221 DGC domain; Region: DGC; cl01742 644282000222 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 644282000223 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 644282000224 Ligand Binding Site [chemical binding]; other site 644282000225 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000227 active site 644282000228 phosphorylation site [posttranslational modification] 644282000229 intermolecular recognition site; other site 644282000230 dimerization interface [polypeptide binding]; other site 644282000231 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000233 active site 644282000234 phosphorylation site [posttranslational modification] 644282000235 intermolecular recognition site; other site 644282000236 dimerization interface [polypeptide binding]; other site 644282000237 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 644282000238 dimer interface [polypeptide binding]; other site 644282000239 phosphorylation site [posttranslational modification] 644282000240 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 644282000241 ATP binding site [chemical binding]; other site 644282000242 Mg2+ binding site [ion binding]; other site 644282000243 G-X-G motif; other site 644282000244 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282000245 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282000246 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000248 active site 644282000249 phosphorylation site [posttranslational modification] 644282000250 intermolecular recognition site; other site 644282000251 dimerization interface [polypeptide 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 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 644282000259 dimer interface [polypeptide binding]; other site 644282000260 phosphorylation site [posttranslational modification] 644282000261 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 644282000262 ATP binding site [chemical binding]; other site 644282000263 G-X-G motif; other site 644282000264 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644282000265 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 644282000266 PAS domain S-box; Region: sensory_box; TIGR00229 644282000267 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 644282000268 putative active site [active] 644282000269 heme pocket [chemical binding]; other site 644282000270 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 644282000271 Histidine kinase; Region: HisKA_3; pfam07730 644282000272 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 644282000273 ATP binding site [chemical binding]; other site 644282000274 Mg2+ binding site [ion binding]; other site 644282000275 G-X-G motif; other site 644282000276 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 644282000277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000278 active site 644282000279 phosphorylation site [posttranslational modification] 644282000280 intermolecular recognition site; other site 644282000281 dimerization interface [polypeptide binding]; other site 644282000282 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 644282000283 DNA binding residues [nucleotide binding] 644282000284 dimerization interface [polypeptide binding]; other site 644282000285 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 644282000286 GAF domain; Region: GAF; cl15785 644282000287 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 644282000288 dimer interface [polypeptide binding]; other site 644282000289 phosphorylation site [posttranslational modification] 644282000290 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 644282000291 ATP binding site [chemical binding]; other site 644282000292 Mg2+ binding site [ion binding]; other site 644282000293 G-X-G motif; other site 644282000294 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 644282000295 catalytic residues [active] 644282000296 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282000297 TPR repeat; Region: TPR_11; pfam13414 644282000298 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 644282000299 TPR motif; other site 644282000300 binding surface 644282000301 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 644282000302 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 644282000303 iron binding site [ion binding]; other site 644282000304 Rubrerythrin [Energy production and conversion]; Region: COG1592 644282000305 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 644282000306 binuclear metal center [ion binding]; other site 644282000307 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 644282000308 iron binding site [ion binding]; other site 644282000309 PemK-like protein; Region: PemK; cl00995 644282000310 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 644282000311 DoxX; Region: DoxX; cl00976 644282000312 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 644282000313 active site residue [active] 644282000314 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282000315 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 644282000316 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282000317 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282000318 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 644282000319 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 644282000320 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 644282000321 Cache domain; Region: Cache_1; pfam02743 644282000322 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282000323 dimer interface [polypeptide binding]; other site 644282000324 putative CheW interface [polypeptide binding]; other site 644282000325 thioredoxin 2; Provisional; Region: PRK10996 644282000326 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 644282000327 catalytic residues [active] 644282000328 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 644282000329 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282000330 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 644282000331 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 644282000332 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282000333 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 644282000334 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 644282000335 substrate binding site [chemical binding]; other site 644282000336 oxyanion hole (OAH) forming residues; other site 644282000337 trimer interface [polypeptide binding]; other site 644282000338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000339 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282000340 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282000341 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282000342 Helix-turn-helix domains; Region: HTH; cl00088 644282000343 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 644282000344 acetyl-CoA acetyltransferase; Provisional; Region: PRK06445 644282000345 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 644282000346 dimer interface [polypeptide binding]; other site 644282000347 active site 644282000348 Cache domain; Region: Cache_2; cl07034 644282000349 PAS domain S-box; Region: sensory_box; TIGR00229 644282000350 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 644282000351 putative active site [active] 644282000352 heme pocket [chemical binding]; other site 644282000353 PAS domain S-box; Region: sensory_box; TIGR00229 644282000354 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 644282000355 putative active site [active] 644282000356 heme pocket [chemical binding]; other site 644282000357 PAS domain S-box; Region: sensory_box; TIGR00229 644282000358 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 644282000359 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 644282000360 dimer interface [polypeptide binding]; other site 644282000361 phosphorylation site [posttranslational modification] 644282000362 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 644282000363 ATP binding site [chemical binding]; other site 644282000364 Mg2+ binding site [ion binding]; other site 644282000365 G-X-G motif; other site 644282000366 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000368 active site 644282000369 phosphorylation site [posttranslational modification] 644282000370 intermolecular recognition site; other site 644282000371 dimerization interface [polypeptide binding]; other site 644282000372 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 644282000373 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 644282000374 ATP phosphoribosyltransferase; Region: HisG; cl15266 644282000375 HisG, C-terminal domain; Region: HisG_C; cl06867 644282000376 aspartate aminotransferase; Provisional; Region: PRK05764 644282000377 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 644282000378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282000379 homodimer interface [polypeptide binding]; other site 644282000380 catalytic residue [active] 644282000381 Predicted GTPase [General function prediction only]; Region: COG0218 644282000382 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 644282000383 G1 box; other site 644282000384 GTP/Mg2+ binding site [chemical binding]; other site 644282000385 Switch I region; other site 644282000386 G2 box; other site 644282000387 G3 box; other site 644282000388 Switch II region; other site 644282000389 G4 box; other site 644282000390 G5 box; other site 644282000391 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 644282000392 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 644282000393 catalytic residues [active] 644282000394 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644282000395 muropeptide transporter; Validated; Region: ampG; PRK11010 644282000396 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 644282000397 S-adenosylmethionine binding site [chemical binding]; other site 644282000398 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282000399 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 644282000400 N-terminal plug; other site 644282000401 ligand-binding site [chemical binding]; other site 644282000402 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 644282000403 putative ligand binding pocket/active site [active] 644282000404 putative metal binding site [ion binding]; other site 644282000405 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 644282000406 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 644282000407 HIGH motif; other site 644282000408 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 644282000409 active site 644282000410 KMSKS motif; other site 644282000411 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282000412 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 644282000413 TPR motif; other site 644282000414 binding surface 644282000415 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282000416 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 644282000417 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 644282000418 Integrase core domain; Region: rve; cl01316 644282000419 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 644282000420 non-specific DNA binding site [nucleotide binding]; other site 644282000421 salt bridge; other site 644282000422 sequence-specific DNA binding site [nucleotide binding]; other site 644282000423 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 644282000424 Catalytic site [active] 644282000425 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 644282000426 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 644282000427 Int/Topo IB signature motif; other site 644282000428 active site 644282000429 DNA binding site [nucleotide binding] 644282000430 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282000431 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 644282000432 Phosphoglycerate kinase; Region: PGK; pfam00162 644282000433 substrate binding site [chemical binding]; other site 644282000434 hinge regions; other site 644282000435 ADP binding site [chemical binding]; other site 644282000436 catalytic site [active] 644282000437 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 644282000438 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 644282000439 classical (c) SDRs; Region: SDR_c; cd05233 644282000440 NAD(P) binding site [chemical binding]; other site 644282000441 active site 644282000442 phosphoglucomutase; Validated; Region: PRK07564 644282000443 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 644282000444 active site 644282000445 substrate binding site [chemical binding]; other site 644282000446 metal binding site [ion binding]; metal-binding site 644282000447 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 644282000448 Flagellar protein YcgR; Region: YcgR_2; pfam12945 644282000449 PilZ domain; Region: PilZ; cl01260 644282000450 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 644282000451 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 644282000452 N-terminal plug; other site 644282000453 ligand-binding site [chemical binding]; other site 644282000454 Penicillin amidase; Region: Penicil_amidase; pfam01804 644282000455 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 644282000456 active site 644282000457 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 644282000458 enoyl-CoA hydratase; Provisional; Region: PRK06210 644282000459 substrate binding site [chemical binding]; other site 644282000460 oxyanion hole (OAH) forming residues; other site 644282000461 trimer interface [polypeptide binding]; other site 644282000462 PAS domain S-box; Region: sensory_box; TIGR00229 644282000463 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 644282000464 putative active site [active] 644282000465 heme pocket [chemical binding]; other site 644282000466 PAS domain S-box; Region: sensory_box; TIGR00229 644282000467 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 644282000468 putative active site [active] 644282000469 heme pocket [chemical binding]; other site 644282000470 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282000471 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 644282000472 putative active site [active] 644282000473 heme pocket [chemical binding]; other site 644282000474 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 644282000475 dimer interface [polypeptide binding]; other site 644282000476 phosphorylation site [posttranslational modification] 644282000477 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 644282000478 ATP binding site [chemical binding]; other site 644282000479 Mg2+ binding site [ion binding]; other site 644282000480 G-X-G motif; other site 644282000481 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282000482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000483 active site 644282000484 phosphorylation site [posttranslational modification] 644282000485 intermolecular recognition site; other site 644282000486 dimerization interface [polypeptide binding]; other site 644282000487 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644282000488 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 644282000489 putative acyl-acceptor binding pocket; other site 644282000490 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282000491 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 644282000492 putative active site [active] 644282000493 heme pocket [chemical binding]; other site 644282000494 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 644282000495 dimer interface [polypeptide binding]; other site 644282000496 phosphorylation site [posttranslational modification] 644282000497 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 644282000498 ATP binding site [chemical binding]; other site 644282000499 Mg2+ binding site [ion binding]; other site 644282000500 G-X-G motif; other site 644282000501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000502 active site 644282000503 phosphorylation site [posttranslational modification] 644282000504 intermolecular recognition site; other site 644282000505 dimerization interface [polypeptide binding]; other site 644282000506 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 644282000507 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 644282000508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000509 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 644282000510 Ligand Binding Site [chemical binding]; other site 644282000511 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 644282000512 Helix-turn-helix domains; Region: HTH; cl00088 644282000513 Cache domain; Region: Cache_2; cl07034 644282000514 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 644282000515 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 644282000516 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 644282000517 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 644282000518 RNA binding site [nucleotide binding]; other site 644282000519 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 644282000520 AMP-binding enzyme; Region: AMP-binding; cl15778 644282000521 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282000522 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 644282000523 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282000524 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282000525 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 644282000526 active site residue [active] 644282000527 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282000528 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 644282000529 Flagellin N-methylase; Region: FliB; cl00497 644282000530 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 644282000531 Flavoprotein; Region: Flavoprotein; cl08021 644282000532 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 644282000533 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282000534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000535 NAD(P) binding site [chemical binding]; other site 644282000536 active site 644282000537 D-cysteine desulfhydrase; Validated; Region: PRK03910 644282000538 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 644282000539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282000540 catalytic residue [active] 644282000541 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644282000542 AMP-binding enzyme; Region: AMP-binding; cl15778 644282000543 hybrid cluster protein; Provisional; Region: PRK05290 644282000544 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 644282000545 ACS interaction site; other site 644282000546 CODH interaction site; other site 644282000547 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 644282000548 hybrid metal cluster; other site 644282000549 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 644282000550 CoenzymeA binding site [chemical binding]; other site 644282000551 subunit interaction site [polypeptide binding]; other site 644282000552 PHB binding site; other site 644282000553 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 644282000554 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282000555 putative active site [active] 644282000556 putative metal binding site [ion binding]; other site 644282000557 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 644282000558 anti sigma factor interaction site; other site 644282000559 regulatory phosphorylation site [posttranslational modification]; other site 644282000560 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 644282000561 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282000562 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 644282000563 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 644282000564 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282000565 Cache domain; Region: Cache_2; cl07034 644282000566 Cache domain; Region: Cache_2; cl07034 644282000567 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 644282000568 Cation efflux family; Region: Cation_efflux; cl00316 644282000569 MgtC family; Region: MgtC; pfam02308 644282000570 LemA family; Region: LemA; cl00742 644282000571 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 644282000572 active site 644282000573 NTP binding site [chemical binding]; other site 644282000574 metal binding triad [ion binding]; metal-binding site 644282000575 Repair protein; Region: Repair_PSII; cl01535 644282000576 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 644282000577 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 644282000578 HSP70 interaction site [polypeptide binding]; other site 644282000579 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 644282000580 substrate binding site [polypeptide binding]; other site 644282000581 dimer interface [polypeptide binding]; other site 644282000582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282000583 dimer interface [polypeptide binding]; other site 644282000584 putative CheW interface [polypeptide binding]; other site 644282000585 HDOD domain; Region: HDOD; pfam08668 644282000586 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282000587 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 644282000588 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 644282000589 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 644282000590 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 644282000591 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282000592 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 644282000593 AIR carboxylase; Region: AIRC; cl00310 644282000594 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 644282000595 purine monophosphate binding site [chemical binding]; other site 644282000596 dimer interface [polypeptide binding]; other site 644282000597 putative catalytic residues [active] 644282000598 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 644282000599 Helix-turn-helix domains; Region: HTH; cl00088 644282000600 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644282000601 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 644282000602 LamB/YcsF family; Region: LamB_YcsF; cl00664 644282000603 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 644282000604 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 644282000605 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 644282000606 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282000607 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 644282000608 dimer interface [polypeptide binding]; other site 644282000609 Putative zinc-finger; Region: zf-HC2; cl15806 644282000610 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 644282000611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282000612 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644282000613 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 644282000614 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 644282000615 homodimer interaction site [polypeptide binding]; other site 644282000616 cofactor binding site; other site 644282000617 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282000618 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 644282000619 substrate binding pocket [chemical binding]; other site 644282000620 membrane-bound complex binding site; other site 644282000621 hinge residues; other site 644282000622 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 644282000623 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282000624 putative active site [active] 644282000625 heme pocket [chemical binding]; other site 644282000626 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 644282000627 dimer interface [polypeptide binding]; other site 644282000628 phosphorylation site [posttranslational modification] 644282000629 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 644282000630 ATP binding site [chemical binding]; other site 644282000631 Mg2+ binding site [ion binding]; other site 644282000632 G-X-G motif; other site 644282000633 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 644282000634 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282000635 ligand binding site [chemical binding]; other site 644282000636 Domain of unknown function (DUF364); Region: DUF364; pfam04016 644282000637 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 644282000638 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282000639 Walker A/P-loop; other site 644282000640 ATP binding site [chemical binding]; other site 644282000641 Q-loop/lid; other site 644282000642 ABC transporter signature motif; other site 644282000643 Walker B; other site 644282000644 D-loop; other site 644282000645 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 644282000646 ABC-ATPase subunit interface; other site 644282000647 dimer interface [polypeptide binding]; other site 644282000648 putative PBP binding regions; other site 644282000649 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 644282000650 intersubunit interface [polypeptide binding]; other site 644282000651 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282000652 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 644282000653 N-terminal plug; other site 644282000654 ligand-binding site [chemical binding]; other site 644282000655 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 644282000656 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 644282000657 FeS/SAM binding site; other site 644282000658 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 644282000659 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 644282000660 S-adenosylmethionine binding site [chemical binding]; other site 644282000661 Predicted acetyltransferase [General function prediction only]; Region: COG3153 644282000662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282000663 Coenzyme A binding pocket [chemical binding]; other site 644282000664 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 644282000665 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 644282000666 Fic family protein [Function unknown]; Region: COG3177 644282000667 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 644282000668 Fic/DOC family; Region: Fic; cl00960 644282000669 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 644282000670 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 644282000671 ATP binding site [chemical binding]; other site 644282000672 Mg++ binding site [ion binding]; other site 644282000673 motif III; other site 644282000674 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 644282000675 nucleotide binding region [chemical binding]; other site 644282000676 ATP-binding site [chemical binding]; other site 644282000677 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 644282000678 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 644282000679 active site 644282000680 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644282000681 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 644282000682 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 644282000683 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 644282000684 mce related protein; Region: MCE; pfam02470 644282000685 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 644282000686 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 644282000687 Walker A/P-loop; other site 644282000688 ATP binding site [chemical binding]; other site 644282000689 Q-loop/lid; other site 644282000690 ABC transporter signature motif; other site 644282000691 Walker B; other site 644282000692 D-loop; other site 644282000693 H-loop/switch region; other site 644282000694 Permease; Region: Permease; cl00510 644282000695 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 644282000696 ATP binding site [chemical binding]; other site 644282000697 substrate binding site [chemical binding]; other site 644282000698 ThiC family; Region: ThiC; cl08031 644282000699 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 644282000700 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 644282000701 active site 644282000702 motif I; other site 644282000703 motif II; other site 644282000704 Helix-turn-helix domains; Region: HTH; cl00088 644282000705 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 644282000706 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 644282000707 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282000708 Coenzyme A binding pocket [chemical binding]; other site 644282000709 Predicted acetyltransferase [General function prediction only]; Region: COG3153 644282000710 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 644282000711 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282000712 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 644282000713 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282000714 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 644282000715 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 644282000716 FeS/SAM binding site; other site 644282000717 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 644282000718 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 644282000719 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282000720 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 644282000721 active site 644282000722 dimerization interface [polypeptide binding]; other site 644282000723 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 644282000724 Walker A motif; other site 644282000725 ATP binding site [chemical binding]; other site 644282000726 Walker B motif; other site 644282000727 arginine finger; other site 644282000728 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 644282000729 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 644282000730 DXD motif; other site 644282000731 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 644282000732 putative active site pocket [active] 644282000733 cleavage site 644282000734 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 644282000735 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 644282000736 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282000737 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 644282000738 DNA binding residues [nucleotide binding] 644282000739 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 644282000740 putative active site [active] 644282000741 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 644282000742 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 644282000743 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 644282000744 transketolase; Reviewed; Region: PRK05899 644282000745 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 644282000746 TPP-binding site [chemical binding]; other site 644282000747 dimer interface [polypeptide binding]; other site 644282000748 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 644282000749 PYR/PP interface [polypeptide binding]; other site 644282000750 dimer interface [polypeptide binding]; other site 644282000751 TPP binding site [chemical binding]; other site 644282000752 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644282000753 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 644282000754 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 644282000755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000756 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 644282000757 dimerization interface [polypeptide binding]; other site 644282000758 ATP binding site [chemical binding]; other site 644282000759 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 644282000760 dimerization interface [polypeptide binding]; other site 644282000761 ATP binding site [chemical binding]; other site 644282000762 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 644282000763 conserved cys residue [active] 644282000764 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 inactive in...; Region: YhaM_OBF_like; cd04492 644282000765 generic binding surface I; other site 644282000766 generic binding surface II; other site 644282000767 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282000768 thymidylate kinase; Validated; Region: tmk; PRK00698 644282000769 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 644282000770 TMP-binding site; other site 644282000771 ATP-binding site [chemical binding]; other site 644282000772 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 644282000773 PSP1 C-terminal conserved region; Region: PSP1; cl00770 644282000774 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 644282000775 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 644282000776 active site 644282000777 HIGH motif; other site 644282000778 KMSKS motif; other site 644282000779 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 644282000780 tRNA binding surface [nucleotide binding]; other site 644282000781 anticodon binding site; other site 644282000782 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 644282000783 dimer interface [polypeptide binding]; other site 644282000784 putative tRNA-binding site [nucleotide binding]; other site 644282000785 Flagellar protein YcgR; Region: YcgR_2; pfam12945 644282000786 PilZ domain; Region: PilZ; cl01260 644282000787 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 644282000788 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 644282000789 substrate binding pocket [chemical binding]; other site 644282000790 dimer interface [polypeptide binding]; other site 644282000791 inhibitor binding site; inhibition site 644282000792 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 644282000793 Putative Fe-S cluster; Region: FeS; pfam04060 644282000794 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 644282000795 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 644282000796 ACS interaction site; other site 644282000797 CODH interaction site; other site 644282000798 metal cluster binding site [ion binding]; other site 644282000799 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 644282000800 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 644282000801 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 644282000802 ACS interaction site; other site 644282000803 CODH interaction site; other site 644282000804 metal cluster binding site [ion binding]; other site 644282000805 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 644282000806 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 644282000807 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 644282000808 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282000809 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 644282000810 DnaA N-terminal domain; Region: DnaA_N; pfam11638 644282000811 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 644282000812 Walker A motif; other site 644282000813 ATP binding site [chemical binding]; other site 644282000814 Walker B motif; other site 644282000815 arginine finger; other site 644282000816 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 644282000817 DnaA box-binding interface [nucleotide binding]; other site 644282000818 DNA polymerase III subunit beta; Validated; Region: PRK05643 644282000819 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 644282000820 putative DNA binding surface [nucleotide binding]; other site 644282000821 dimer interface [polypeptide binding]; other site 644282000822 beta-clamp/clamp loader binding surface; other site 644282000823 beta-clamp/translesion DNA polymerase binding surface; other site 644282000824 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 644282000825 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282000826 substrate binding pocket [chemical binding]; other site 644282000827 membrane-bound complex binding site; other site 644282000828 hinge residues; other site 644282000829 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 644282000830 active site 644282000831 catalytic motif [active] 644282000832 Zn binding site [ion binding]; other site 644282000833 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 644282000834 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 644282000835 PAS fold; Region: PAS_4; pfam08448 644282000836 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 644282000837 putative active site [active] 644282000838 heme pocket [chemical binding]; other site 644282000839 GAF domain; Region: GAF_2; pfam13185 644282000840 GAF domain; Region: GAF; cl15785 644282000841 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282000842 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 644282000843 putative active site [active] 644282000844 heme pocket [chemical binding]; other site 644282000845 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 644282000846 dimer interface [polypeptide binding]; other site 644282000847 phosphorylation site [posttranslational modification] 644282000848 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 644282000849 ATP binding site [chemical binding]; other site 644282000850 Mg2+ binding site [ion binding]; other site 644282000851 G-X-G motif; other site 644282000852 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282000853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000854 active site 644282000855 phosphorylation site [posttranslational modification] 644282000856 intermolecular recognition site; other site 644282000857 dimerization interface [polypeptide binding]; other site 644282000858 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 644282000859 Response regulator receiver domain; Region: Response_reg; pfam00072 644282000860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282000861 active site 644282000862 phosphorylation site [posttranslational modification] 644282000863 intermolecular recognition site; other site 644282000864 dimerization interface [polypeptide binding]; other site 644282000865 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 644282000866 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282000867 Walker A motif; other site 644282000868 ATP binding site [chemical binding]; other site 644282000869 Walker B motif; other site 644282000870 arginine finger; other site 644282000871 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 644282000872 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 644282000873 ATP binding site [chemical binding]; other site 644282000874 Mg2+ binding site [ion binding]; other site 644282000875 G-X-G motif; other site 644282000876 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 644282000877 anchoring element; other site 644282000878 dimer interface [polypeptide binding]; other site 644282000879 ATP binding site [chemical binding]; other site 644282000880 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 644282000881 active site 644282000882 putative metal-binding site [ion binding]; other site 644282000883 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 644282000884 Transcriptional regulators [Transcription]; Region: MarR; COG1846 644282000885 Helix-turn-helix domains; Region: HTH; cl00088 644282000886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000887 putative acyltransferase; Provisional; Region: PRK05790 644282000888 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 644282000889 dimer interface [polypeptide binding]; other site 644282000890 active site 644282000891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282000892 metal binding site [ion binding]; metal-binding site 644282000893 active site 644282000894 I-site; other site 644282000895 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 644282000896 hypothetical protein; Reviewed; Region: PRK09588 644282000897 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]; Region: COG1245 644282000898 4Fe-4S binding domain; Region: Fer4; cl02805 644282000899 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 644282000900 putative FMN binding site [chemical binding]; other site 644282000901 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 644282000902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000903 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 644282000904 DNA gyrase subunit A; Validated; Region: PRK05560 644282000905 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 644282000906 CAP-like domain; other site 644282000907 active site 644282000908 primary dimer interface [polypeptide binding]; other site 644282000909 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282000910 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282000911 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282000912 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282000913 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282000914 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 644282000915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282000916 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 644282000917 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 644282000918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282000919 PAS domain S-box; Region: sensory_box; TIGR00229 644282000920 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 644282000921 putative active site [active] 644282000922 heme pocket [chemical binding]; other site 644282000923 PAS fold; Region: PAS_4; pfam08448 644282000924 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 644282000925 putative active site [active] 644282000926 heme pocket [chemical binding]; other site 644282000927 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 644282000928 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282000929 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 644282000930 dimer interface [polypeptide binding]; other site 644282000931 phosphorylation site [posttranslational modification] 644282000932 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 644282000933 ATP binding site [chemical binding]; other site 644282000934 Mg2+ binding site [ion binding]; other site 644282000935 G-X-G motif; other site 644282000936 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; cl15754 644282000937 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 644282000938 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 644282000939 trmE is a tRNA modification GTPase; Region: trmE; cd04164 644282000940 G1 box; other site 644282000941 GTP/Mg2+ binding site [chemical binding]; other site 644282000942 Switch I region; other site 644282000943 G2 box; other site 644282000944 Switch II region; other site 644282000945 G3 box; other site 644282000946 G4 box; other site 644282000947 G5 box; other site 644282000948 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 644282000949 G-X-X-G motif; other site 644282000950 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 644282000951 RxxxH motif; other site 644282000952 membrane protein insertase; Provisional; Region: PRK01318 644282000953 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 644282000954 Haemolytic domain; Region: Haemolytic; cl00506 644282000955 Ribonuclease P; Region: Ribonuclease_P; cl00457 644282000956 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 644282000957 rod shape-determining protein MreB; Provisional; Region: PRK13927 644282000958 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 644282000959 ATP binding site [chemical binding]; other site 644282000960 profilin binding site; other site 644282000961 rod shape-determining protein MreC; Provisional; Region: PRK13922 644282000962 rod shape-determining protein MreC; Region: MreC; pfam04085 644282000963 rod shape-determining protein MreD; Region: MreD; cl01087 644282000964 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 644282000965 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 644282000966 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 644282000967 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 644282000968 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 644282000969 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 644282000970 Plant ATP synthase F0; Region: YMF19; cl07975 644282000971 Plant ATP synthase F0; Region: YMF19; cl07975 644282000972 Plant ATP synthase F0; Region: YMF19; cl07975 644282000973 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 644282000974 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 644282000975 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 644282000976 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 644282000977 beta subunit interaction interface [polypeptide binding]; other site 644282000978 Walker A motif; other site 644282000979 ATP binding site [chemical binding]; other site 644282000980 Walker B motif; other site 644282000981 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 644282000982 ATP synthase; Region: ATP-synt; cl00365 644282000983 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 644282000984 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 644282000985 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 644282000986 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 644282000987 alpha subunit interaction interface [polypeptide binding]; other site 644282000988 Walker A motif; other site 644282000989 ATP binding site [chemical binding]; other site 644282000990 Walker B motif; other site 644282000991 inhibitor binding site; inhibition site 644282000992 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 644282000993 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 644282000994 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 644282000995 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 644282000996 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 644282000997 Substrate binding site; other site 644282000998 Mg++ binding site; other site 644282000999 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 644282001000 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 644282001001 glutaminase active site [active] 644282001002 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 644282001003 dimer interface [polypeptide binding]; other site 644282001004 active site 644282001005 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 644282001006 dimer interface [polypeptide binding]; other site 644282001007 active site 644282001008 Cell division protein ZapA; Region: ZapA; cl01146 644282001009 phosphodiesterase; Provisional; Region: PRK12704 644282001010 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282001011 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282001012 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 644282001013 putative active site [active] 644282001014 metal binding site [ion binding]; metal-binding site 644282001015 homodimer binding site [polypeptide binding]; other site 644282001016 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 644282001017 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 644282001018 active site 644282001019 HIGH motif; other site 644282001020 dimer interface [polypeptide binding]; other site 644282001021 KMSKS motif; other site 644282001022 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282001023 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001024 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282001025 Fic family protein [Function unknown]; Region: COG3177 644282001026 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 644282001027 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 644282001028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282001029 catalytic residue [active] 644282001030 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 644282001031 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 644282001032 Cation efflux family; Region: Cation_efflux; cl00316 644282001033 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644282001034 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644282001035 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282001036 metal binding site [ion binding]; metal-binding site 644282001037 active site 644282001038 I-site; other site 644282001039 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 644282001040 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001041 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282001042 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 644282001043 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 644282001044 Walker A/P-loop; other site 644282001045 ATP binding site [chemical binding]; other site 644282001046 Q-loop/lid; other site 644282001047 ABC transporter signature motif; other site 644282001048 Walker B; other site 644282001049 D-loop; other site 644282001050 H-loop/switch region; other site 644282001051 ABC-2 type transporter; Region: ABC2_membrane; cl11417 644282001052 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282001053 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 644282001054 S-adenosylmethionine binding site [chemical binding]; other site 644282001055 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 644282001056 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 644282001057 putative metal binding site [ion binding]; other site 644282001058 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 644282001059 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 644282001060 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 644282001061 Walker A/P-loop; other site 644282001062 ATP binding site [chemical binding]; other site 644282001063 Q-loop/lid; other site 644282001064 ABC transporter signature motif; other site 644282001065 Walker B; other site 644282001066 D-loop; other site 644282001067 H-loop/switch region; other site 644282001068 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 644282001069 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 644282001070 dimer interface [polypeptide binding]; other site 644282001071 ABC-ATPase subunit interface; other site 644282001072 putative PBP binding regions; other site 644282001073 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 644282001074 homodimer interaction site [polypeptide binding]; other site 644282001075 cofactor binding site; other site 644282001076 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 644282001077 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 644282001078 N-terminal plug; other site 644282001079 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 644282001080 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 644282001081 dimer interface [polypeptide binding]; other site 644282001082 phosphorylation site [posttranslational modification] 644282001083 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 644282001084 ATP binding site [chemical binding]; other site 644282001085 Mg2+ binding site [ion binding]; other site 644282001086 G-X-G motif; other site 644282001087 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001089 active site 644282001090 phosphorylation site [posttranslational modification] 644282001091 intermolecular recognition site; other site 644282001092 dimerization interface [polypeptide binding]; other site 644282001093 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282001094 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282001095 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282001096 transmembrane helices; other site 644282001097 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282001098 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 644282001099 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282001100 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001101 active site 644282001102 phosphorylation site [posttranslational modification] 644282001103 intermolecular recognition site; other site 644282001104 dimerization interface [polypeptide binding]; other site 644282001105 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 644282001106 Walker A motif; other site 644282001107 ATP binding site [chemical binding]; other site 644282001108 Walker B motif; other site 644282001109 arginine finger; other site 644282001110 Helix-turn-helix domains; Region: HTH; cl00088 644282001111 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 644282001112 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 644282001113 CoenzymeA binding site [chemical binding]; other site 644282001114 subunit interaction site [polypeptide binding]; other site 644282001115 PHB binding site; other site 644282001116 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 644282001117 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 644282001118 dimerization interface [polypeptide binding]; other site 644282001119 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 644282001120 putative active site [active] 644282001121 heme pocket [chemical binding]; other site 644282001122 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 644282001123 dimer interface [polypeptide binding]; other site 644282001124 phosphorylation site [posttranslational modification] 644282001125 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 644282001126 ATP binding site [chemical binding]; other site 644282001127 Mg2+ binding site [ion binding]; other site 644282001128 G-X-G motif; other site 644282001129 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282001130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001131 active site 644282001132 phosphorylation site [posttranslational modification] 644282001133 intermolecular recognition site; other site 644282001134 dimerization interface [polypeptide binding]; other site 644282001135 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 644282001136 Walker A motif; other site 644282001137 ATP binding site [chemical binding]; other site 644282001138 Walker B motif; other site 644282001139 arginine finger; other site 644282001140 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 644282001141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001142 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 644282001143 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 644282001144 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 644282001145 tRNA; other site 644282001146 putative tRNA binding site [nucleotide binding]; other site 644282001147 putative NADP binding site [chemical binding]; other site 644282001148 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 644282001149 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 644282001150 Dodecin; Region: Dodecin; cl01328 644282001151 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 644282001152 Dehydratase family; Region: ILVD_EDD; cl00340 644282001153 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 644282001154 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 644282001155 PYR/PP interface [polypeptide binding]; other site 644282001156 dimer interface [polypeptide binding]; other site 644282001157 TPP binding site [chemical binding]; other site 644282001158 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 644282001159 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 644282001160 TPP-binding site [chemical binding]; other site 644282001161 dimer interface [polypeptide binding]; other site 644282001162 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 644282001163 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 644282001164 putative valine binding site [chemical binding]; other site 644282001165 dimer interface [polypeptide binding]; other site 644282001166 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 644282001167 ketol-acid reductoisomerase; Provisional; Region: PRK05479 644282001168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001169 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 644282001170 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 644282001171 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 644282001172 substrate binding site [chemical binding]; other site 644282001173 ligand binding site [chemical binding]; other site 644282001174 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 644282001175 substrate binding site [chemical binding]; other site 644282001176 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 644282001177 tartrate dehydrogenase; Provisional; Region: PRK08194 644282001178 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 644282001179 glycogen branching enzyme; Provisional; Region: PRK12313 644282001180 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 644282001181 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 644282001182 active site 644282001183 catalytic site [active] 644282001184 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 644282001185 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 644282001186 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 644282001187 putative dimer interface [polypeptide binding]; other site 644282001188 putative anticodon binding site; other site 644282001189 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 644282001190 homodimer interface [polypeptide binding]; other site 644282001191 motif 1; other site 644282001192 motif 2; other site 644282001193 active site 644282001194 motif 3; other site 644282001195 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282001196 ligand binding site [chemical binding]; other site 644282001197 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282001198 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 644282001199 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282001200 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 644282001201 putative active site [active] 644282001202 heme pocket [chemical binding]; other site 644282001203 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 644282001204 dimer interface [polypeptide binding]; other site 644282001205 phosphorylation site [posttranslational modification] 644282001206 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 644282001207 ATP binding site [chemical binding]; other site 644282001208 Mg2+ binding site [ion binding]; other site 644282001209 G-X-G motif; other site 644282001210 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 644282001211 active site 644282001212 catalytic residues [active] 644282001213 metal binding site [ion binding]; metal-binding site 644282001214 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 644282001215 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 644282001216 putative active site [active] 644282001217 substrate binding site [chemical binding]; other site 644282001218 putative cosubstrate binding site; other site 644282001219 catalytic site [active] 644282001220 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 644282001221 substrate binding site [chemical binding]; other site 644282001222 16S rRNA methyltransferase B; Provisional; Region: PRK14901 644282001223 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 644282001224 putative RNA binding site [nucleotide binding]; other site 644282001225 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; cl15754 644282001226 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 644282001227 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 644282001228 inhibitor-cofactor binding pocket; inhibition site 644282001229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282001230 catalytic residue [active] 644282001231 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 644282001232 Ligand binding site; other site 644282001233 Putative Catalytic site; other site 644282001234 DXD motif; other site 644282001235 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 644282001236 putative trimer interface [polypeptide binding]; other site 644282001237 putative CoA binding site [chemical binding]; other site 644282001238 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 644282001239 putative trimer interface [polypeptide binding]; other site 644282001240 putative active site [active] 644282001241 putative substrate binding site [chemical binding]; other site 644282001242 putative CoA binding site [chemical binding]; other site 644282001243 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 644282001244 putative trimer interface [polypeptide binding]; other site 644282001245 putative CoA binding site [chemical binding]; other site 644282001246 Cupin domain; Region: Cupin_2; cl09118 644282001247 GtrA-like protein; Region: GtrA; cl00971 644282001248 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 644282001249 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 644282001250 catalytic core [active] 644282001251 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 644282001252 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 644282001253 hydrophobic ligand binding site; other site 644282001254 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 644282001255 Ligand Binding Site [chemical binding]; other site 644282001256 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 644282001257 Protein of unknown function (DUF434); Region: DUF434; cl04460 644282001258 PAS domain S-box; Region: sensory_box; TIGR00229 644282001259 PAS domain S-box; Region: sensory_box; TIGR00229 644282001260 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 644282001261 putative active site [active] 644282001262 heme pocket [chemical binding]; other site 644282001263 PAS domain S-box; Region: sensory_box; TIGR00229 644282001264 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 644282001265 putative active site [active] 644282001266 heme pocket [chemical binding]; other site 644282001267 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282001268 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 644282001269 ATP binding site [chemical binding]; other site 644282001270 Mg2+ binding site [ion binding]; other site 644282001271 G-X-G motif; other site 644282001272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001273 active site 644282001274 phosphorylation site [posttranslational modification] 644282001275 intermolecular recognition site; other site 644282001276 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 644282001277 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 644282001278 substrate binding site [chemical binding]; other site 644282001279 hexamer interface [polypeptide binding]; other site 644282001280 metal binding site [ion binding]; metal-binding site 644282001281 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 644282001282 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 644282001283 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 644282001284 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282001285 catalytic residue [active] 644282001286 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 644282001287 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 644282001288 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 644282001289 active site 644282001290 putative substrate binding pocket [chemical binding]; other site 644282001291 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 644282001292 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 644282001293 active site 644282001294 putative substrate binding pocket [chemical binding]; other site 644282001295 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 644282001296 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 644282001297 putative catalytic site [active] 644282001298 putative phosphate binding site [ion binding]; other site 644282001299 putative metal binding site [ion binding]; other site 644282001300 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 644282001301 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 644282001302 phosphate binding site [ion binding]; other site 644282001303 putative substrate binding pocket [chemical binding]; other site 644282001304 dimer interface [polypeptide binding]; other site 644282001305 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 644282001306 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282001307 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 644282001308 PhoU domain; Region: PhoU; pfam01895 644282001309 PhoU domain; Region: PhoU; pfam01895 644282001310 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282001311 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 644282001312 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001313 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282001314 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 644282001315 active site 644282001316 substrate binding pocket [chemical binding]; other site 644282001317 homodimer interaction site [polypeptide binding]; other site 644282001318 excinuclease ABC subunit B; Provisional; Region: PRK05298 644282001319 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 644282001320 ATP binding site [chemical binding]; other site 644282001321 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 644282001322 nucleotide binding region [chemical binding]; other site 644282001323 ATP-binding site [chemical binding]; other site 644282001324 Ultra-violet resistance protein B; Region: UvrB; pfam12344 644282001325 UvrB/uvrC motif; Region: UVR; pfam02151 644282001326 HDOD domain; Region: HDOD; pfam08668 644282001327 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282001328 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 644282001329 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 644282001330 molybdopterin cofactor binding site; other site 644282001331 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 644282001332 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 644282001333 molybdopterin cofactor binding site; other site 644282001334 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644282001335 Helix-turn-helix domains; Region: HTH; cl00088 644282001336 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 644282001337 PAS domain; Region: PAS_9; pfam13426 644282001338 putative active site [active] 644282001339 heme pocket [chemical binding]; other site 644282001340 PAS domain; Region: PAS_9; pfam13426 644282001341 PAS domain S-box; Region: sensory_box; TIGR00229 644282001342 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 644282001343 putative active site [active] 644282001344 heme pocket [chemical binding]; other site 644282001345 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282001346 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 644282001347 dimer interface [polypeptide binding]; other site 644282001348 phosphorylation site [posttranslational modification] 644282001349 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 644282001350 ATP binding site [chemical binding]; other site 644282001351 Mg2+ binding site [ion binding]; other site 644282001352 G-X-G motif; other site 644282001353 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001355 active site 644282001356 phosphorylation site [posttranslational modification] 644282001357 intermolecular recognition site; other site 644282001358 dimerization interface [polypeptide binding]; other site 644282001359 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282001360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001361 active site 644282001362 phosphorylation site [posttranslational modification] 644282001363 intermolecular recognition site; other site 644282001364 dimerization interface [polypeptide binding]; other site 644282001365 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 644282001366 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 644282001367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001368 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 644282001369 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 644282001370 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 644282001371 Ligand Binding Site [chemical binding]; other site 644282001372 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 644282001373 PAS domain; Region: PAS_9; pfam13426 644282001374 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 644282001375 PAS fold; Region: PAS_3; pfam08447 644282001376 putative active site [active] 644282001377 heme pocket [chemical binding]; other site 644282001378 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 644282001379 PAS domain; Region: PAS_9; pfam13426 644282001380 putative active site [active] 644282001381 heme pocket [chemical binding]; other site 644282001382 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 644282001383 Histidine kinase; Region: HisKA_2; cl06527 644282001384 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 644282001385 ATP binding site [chemical binding]; other site 644282001386 Mg2+ binding site [ion binding]; other site 644282001387 G-X-G motif; other site 644282001388 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001390 active site 644282001391 phosphorylation site [posttranslational modification] 644282001392 intermolecular recognition site; other site 644282001393 dimerization interface [polypeptide binding]; other site 644282001394 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 644282001395 PAS fold; Region: PAS_3; pfam08447 644282001396 PAS domain S-box; Region: sensory_box; TIGR00229 644282001397 PAS fold; Region: PAS; pfam00989 644282001398 PAS domain S-box; Region: sensory_box; TIGR00229 644282001399 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 644282001400 putative active site [active] 644282001401 heme pocket [chemical binding]; other site 644282001402 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282001403 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 644282001404 putative active site [active] 644282001405 heme pocket [chemical binding]; other site 644282001406 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 644282001407 dimer interface [polypeptide binding]; other site 644282001408 phosphorylation site [posttranslational modification] 644282001409 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 644282001410 ATP binding site [chemical binding]; other site 644282001411 Mg2+ binding site [ion binding]; other site 644282001412 G-X-G motif; other site 644282001413 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001415 active site 644282001416 phosphorylation site [posttranslational modification] 644282001417 intermolecular recognition site; other site 644282001418 dimerization interface [polypeptide binding]; other site 644282001419 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 644282001420 Putative cyclase; Region: Cyclase; cl00814 644282001421 hypothetical protein; Provisional; Region: PRK08317 644282001422 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 644282001423 S-adenosylmethionine binding site [chemical binding]; other site 644282001424 Peptidase family M48; Region: Peptidase_M48; cl12018 644282001425 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 644282001426 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 644282001427 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 644282001428 protein binding site [polypeptide binding]; other site 644282001429 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 644282001430 2TM domain; Region: 2TM; pfam13239 644282001431 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 644282001432 lipoyl attachment site [posttranslational modification]; other site 644282001433 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 644282001434 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 644282001435 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 644282001436 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282001437 active site 644282001438 HIGH motif; other site 644282001439 nucleotide binding site [chemical binding]; other site 644282001440 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644282001441 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 644282001442 active site 644282001443 KMSKS motif; other site 644282001444 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 644282001445 tRNA binding surface [nucleotide binding]; other site 644282001446 anticodon binding site; other site 644282001447 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 644282001448 Uncharacterized conserved protein [Function unknown]; Region: COG2006 644282001449 Uncharacterized conserved protein [Function unknown]; Region: COG2006 644282001450 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 644282001451 4Fe-4S binding domain; Region: Fer4; cl02805 644282001452 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282001453 putative peptidoglycan binding site; other site 644282001454 HDOD domain; Region: HDOD; pfam08668 644282001455 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 644282001456 dimer interface [polypeptide binding]; other site 644282001457 phosphorylation site [posttranslational modification] 644282001458 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 644282001459 ATP binding site [chemical binding]; other site 644282001460 G-X-G motif; other site 644282001461 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 644282001462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001463 NAD(P) binding site [chemical binding]; other site 644282001464 active site 644282001465 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 644282001466 putative deacylase active site [active] 644282001467 Family description; Region: VCBS; pfam13517 644282001468 DNA polymerase II large subunit; Validated; Region: PRK04023 644282001469 Double zinc ribbon; Region: DZR; pfam12773 644282001470 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 644282001471 active site 644282001472 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 644282001473 ATP-sulfurylase; Region: ATPS; cd00517 644282001474 active site 644282001475 HXXH motif; other site 644282001476 flexible loop; other site 644282001477 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 644282001478 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001479 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001480 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 644282001481 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 644282001482 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644282001483 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 644282001484 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644282001485 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282001486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282001487 Coenzyme A binding pocket [chemical binding]; other site 644282001488 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 644282001489 DEAD-like helicases superfamily; Region: DEXDc; smart00487 644282001490 ATP binding site [chemical binding]; other site 644282001491 Mg++ binding site [ion binding]; other site 644282001492 motif III; other site 644282001493 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 644282001494 nucleotide binding region [chemical binding]; other site 644282001495 ATP-binding site [chemical binding]; other site 644282001496 DbpA RNA binding domain; Region: DbpA; pfam03880 644282001497 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 644282001498 active site 644282001499 catalytic residues [active] 644282001500 metal binding site [ion binding]; metal-binding site 644282001501 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 644282001502 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 644282001503 FeS/SAM binding site; other site 644282001504 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 644282001505 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 644282001506 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 644282001507 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 644282001508 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 644282001509 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 644282001510 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 644282001511 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 644282001512 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 644282001513 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 644282001514 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 644282001515 MoFe protein alpha/beta subunit interactions; other site 644282001516 Alpha subunit P cluster binding residues; other site 644282001517 FeMoco binding residues [chemical binding]; other site 644282001518 MoFe protein alpha subunit/Fe protein contacts; other site 644282001519 MoFe protein dimer/ dimer interactions; other site 644282001520 Nitrogen regulatory protein P-II; Region: P-II; cl00412 644282001521 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282001522 Nitrogen regulatory protein P-II; Region: P-II; cl00412 644282001523 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282001524 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 644282001525 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 644282001526 Nucleotide-binding sites [chemical binding]; other site 644282001527 Walker A motif; other site 644282001528 Switch I region of nucleotide binding site; other site 644282001529 Fe4S4 binding sites [ion binding]; other site 644282001530 Switch II region of nucleotide binding site; other site 644282001531 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282001532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001533 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282001534 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 644282001535 Cation transport protein; Region: TrkH; cl10514 644282001536 Survival protein SurE; Region: SurE; cl00448 644282001537 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282001538 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282001539 Zn2+ binding site [ion binding]; other site 644282001540 Mg2+ binding site [ion binding]; other site 644282001541 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 644282001542 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282001543 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282001544 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 644282001545 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 644282001546 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 644282001547 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 644282001548 Walker A/P-loop; other site 644282001549 ATP binding site [chemical binding]; other site 644282001550 Q-loop/lid; other site 644282001551 ABC transporter signature motif; other site 644282001552 Walker B; other site 644282001553 D-loop; other site 644282001554 H-loop/switch region; other site 644282001555 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 644282001556 putative carbohydrate binding site [chemical binding]; other site 644282001557 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 644282001558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001559 Bacterial sugar transferase; Region: Bac_transf; cl00939 644282001560 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 644282001561 MoaC family. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine derivative to the precursor...; Region: MoaC; cl00242 644282001562 trimer interface [polypeptide binding]; other site 644282001563 dimer interface [polypeptide binding]; other site 644282001564 putative active site [active] 644282001565 chaperone protein DnaJ; Provisional; Region: PRK10767 644282001566 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 644282001567 HSP70 interaction site [polypeptide binding]; other site 644282001568 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 644282001569 substrate binding site [polypeptide binding]; other site 644282001570 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 644282001571 Zn binding sites [ion binding]; other site 644282001572 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 644282001573 dimer interface [polypeptide binding]; other site 644282001574 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 644282001575 Activator of aromatic catabolism; Region: XylR_N; pfam06505 644282001576 Heme NO binding; Region: HNOB; cl15268 644282001577 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 644282001578 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 644282001579 Walker A motif; other site 644282001580 ATP binding site [chemical binding]; other site 644282001581 Walker B motif; other site 644282001582 arginine finger; other site 644282001583 Helix-turn-helix domains; Region: HTH; cl00088 644282001584 Archaeal serine proteases [General function prediction only]; Region: COG1750 644282001585 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 644282001586 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 644282001587 active site 644282001588 metal binding site [ion binding]; metal-binding site 644282001589 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644282001590 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 644282001591 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 644282001592 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001593 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 644282001594 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282001595 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 644282001596 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282001597 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 644282001598 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 644282001599 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 644282001600 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 644282001601 putative NADH binding site [chemical binding]; other site 644282001602 putative active site [active] 644282001603 nudix motif; other site 644282001604 putative metal binding site [ion binding]; other site 644282001605 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 644282001606 active site 644282001607 Secretin and TonB N terminus short domain; Region: STN; cl06624 644282001608 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 644282001609 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 644282001610 N-terminal plug; other site 644282001611 ligand-binding site [chemical binding]; other site 644282001612 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282001613 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 644282001614 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 644282001615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001616 Chorismate mutase type II; Region: CM_2; cl00693 644282001617 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 644282001618 Prephenate dehydratase; Region: PDT; pfam00800 644282001619 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 644282001620 putative L-Phe binding site [chemical binding]; other site 644282001621 NeuB family; Region: NeuB; cl00496 644282001622 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 644282001623 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 644282001624 catalytic loop [active] 644282001625 iron binding site [ion binding]; other site 644282001626 4Fe-4S binding domain; Region: Fer4; cl02805 644282001627 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 644282001628 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 644282001629 molybdopterin cofactor binding site; other site 644282001630 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 644282001631 molybdopterin cofactor binding site; other site 644282001632 AsmA family; Region: AsmA; pfam05170 644282001633 AsmA-like C-terminal region; Region: AsmA_2; cl15864 644282001634 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644282001635 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 644282001636 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282001637 dimer interface [polypeptide binding]; other site 644282001638 putative CheW interface [polypeptide binding]; other site 644282001639 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 644282001640 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 644282001641 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 644282001642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001643 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282001644 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 644282001645 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 644282001646 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 644282001647 4Fe-4S binding domain; Region: Fer4; cl02805 644282001648 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 644282001649 molybdopterin cofactor binding site; other site 644282001650 Staphylococcal nuclease homologues; Region: SNc; smart00318 644282001651 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 644282001652 Catalytic site; other site 644282001653 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 644282001654 active site 644282001655 dimerization interface [polypeptide binding]; other site 644282001656 ribonuclease PH; Reviewed; Region: rph; PRK00173 644282001657 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 644282001658 oligomer interface [polypeptide binding]; other site 644282001659 RNA binding site [nucleotide binding]; other site 644282001660 Helix-turn-helix domains; Region: HTH; cl00088 644282001661 Integrase core domain; Region: rve; cl01316 644282001662 Integrase core domain; Region: rve_3; cl15866 644282001663 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 644282001664 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282001665 Helix-turn-helix domains; Region: HTH; cl00088 644282001666 Integrase core domain; Region: rve; cl01316 644282001667 Integrase core domain; Region: rve_3; cl15866 644282001668 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 644282001669 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 644282001670 ring oligomerisation interface [polypeptide binding]; other site 644282001671 ATP/Mg binding site [chemical binding]; other site 644282001672 stacking interactions; other site 644282001673 hinge regions; other site 644282001674 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 644282001675 oligomerisation interface [polypeptide binding]; other site 644282001676 mobile loop; other site 644282001677 roof hairpin; other site 644282001678 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 644282001679 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 644282001680 FeS/SAM binding site; other site 644282001681 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 644282001682 NADPH bind site [chemical binding]; other site 644282001683 putative FMN binding site [chemical binding]; other site 644282001684 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 644282001685 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 644282001686 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 644282001687 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 644282001688 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 644282001689 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 644282001690 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 644282001691 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 644282001692 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 644282001693 FOG: CBS domain [General function prediction only]; Region: COG0517 644282001694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282001695 metal binding site [ion binding]; metal-binding site 644282001696 active site 644282001697 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 644282001698 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282001699 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282001700 active site 644282001701 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 644282001702 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001703 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282001704 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 644282001705 TPR motif; other site 644282001706 binding surface 644282001707 TPR repeat; Region: TPR_11; pfam13414 644282001708 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 644282001709 binding surface 644282001710 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282001711 TPR motif; other site 644282001712 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 644282001713 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 644282001714 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282001715 catalytic residue [active] 644282001716 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 644282001717 dimer interface [polypeptide binding]; other site 644282001718 ADP-ribose binding site [chemical binding]; other site 644282001719 active site 644282001720 nudix motif; other site 644282001721 metal binding site [ion binding]; metal-binding site 644282001722 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 644282001723 Chemotaxis phosphatase CheX; Region: CheX; cl15816 644282001724 YGGT family; Region: YGGT; cl00508 644282001725 PilZ domain; Region: PilZ; cl01260 644282001726 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 644282001727 TPR motif; other site 644282001728 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 644282001729 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 644282001730 active site residue [active] 644282001731 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 644282001732 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 644282001733 MOFRL family; Region: MOFRL; pfam05161 644282001734 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 644282001735 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 644282001736 Walker A/P-loop; other site 644282001737 ATP binding site [chemical binding]; other site 644282001738 Q-loop/lid; other site 644282001739 ABC transporter signature motif; other site 644282001740 Walker B; other site 644282001741 D-loop; other site 644282001742 H-loop/switch region; other site 644282001743 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 644282001744 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 644282001745 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 644282001746 Walker A/P-loop; other site 644282001747 ATP binding site [chemical binding]; other site 644282001748 Q-loop/lid; other site 644282001749 ABC transporter signature motif; other site 644282001750 Walker B; other site 644282001751 D-loop; other site 644282001752 H-loop/switch region; other site 644282001753 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 644282001754 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 644282001755 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 644282001756 intersubunit interface [polypeptide binding]; other site 644282001757 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282001758 dimer interface [polypeptide binding]; other site 644282001759 putative CheW interface [polypeptide binding]; other site 644282001760 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 644282001761 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 644282001762 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 644282001763 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 644282001764 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282001765 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282001766 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282001767 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 644282001768 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 644282001769 Walker A/P-loop; other site 644282001770 ATP binding site [chemical binding]; other site 644282001771 Q-loop/lid; other site 644282001772 ABC transporter signature motif; other site 644282001773 Walker B; other site 644282001774 D-loop; other site 644282001775 H-loop/switch region; other site 644282001776 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 644282001777 ABC-2 type transporter; Region: ABC2_membrane; cl11417 644282001778 enoyl-CoA hydratase; Provisional; Region: PRK06142 644282001779 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 644282001780 substrate binding site [chemical binding]; other site 644282001781 oxyanion hole (OAH) forming residues; other site 644282001782 trimer interface [polypeptide binding]; other site 644282001783 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 644282001784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001785 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282001786 LabA_like proteins; Region: LabA_like/DUF88; cl10034 644282001787 putative metal binding site [ion binding]; other site 644282001788 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cl14879 644282001789 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 644282001790 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 644282001791 active site 644282001792 HIGH motif; other site 644282001793 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 644282001794 KMSKS motif; other site 644282001795 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 644282001796 tRNA binding surface [nucleotide binding]; other site 644282001797 anticodon binding site; other site 644282001798 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 644282001799 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 644282001800 substrate binding site; other site 644282001801 dimer interface; other site 644282001802 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 644282001803 homotrimer interaction site [polypeptide binding]; other site 644282001804 zinc binding site [ion binding]; other site 644282001805 CDP-binding sites; other site 644282001806 Domain of unknown function (DUF309); Region: DUF309; cl00667 644282001807 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 644282001808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282001809 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 644282001810 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644282001811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282001812 dimer interface [polypeptide binding]; other site 644282001813 putative CheW interface [polypeptide binding]; other site 644282001814 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 644282001815 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 644282001816 FeS/SAM binding site; other site 644282001817 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 644282001818 PAS domain; Region: PAS_9; pfam13426 644282001819 putative active site [active] 644282001820 heme pocket [chemical binding]; other site 644282001821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282001822 metal binding site [ion binding]; metal-binding site 644282001823 active site 644282001824 I-site; other site 644282001825 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 644282001826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282001827 metal binding site [ion binding]; metal-binding site 644282001828 active site 644282001829 I-site; other site 644282001830 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282001831 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 644282001832 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 644282001833 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 644282001834 G1 box; other site 644282001835 GTP/Mg2+ binding site [chemical binding]; other site 644282001836 Switch I region; other site 644282001837 G2 box; other site 644282001838 G3 box; other site 644282001839 Switch II region; other site 644282001840 G4 box; other site 644282001841 G5 box; other site 644282001842 Nucleoside recognition; Region: Gate; cl00486 644282001843 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 644282001844 Nucleoside recognition; Region: Gate; cl00486 644282001845 FeoA domain; Region: FeoA; cl00838 644282001846 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 644282001847 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644282001848 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282001849 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644282001850 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 644282001851 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282001852 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 644282001853 methyl-accepting protein IV; Provisional; Region: PRK09793 644282001854 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282001855 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 644282001856 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 644282001857 substrate binding pocket [chemical binding]; other site 644282001858 chain length determination region; other site 644282001859 substrate-Mg2+ binding site; other site 644282001860 catalytic residues [active] 644282001861 aspartate-rich region 1; other site 644282001862 active site lid residues [active] 644282001863 aspartate-rich region 2; other site 644282001864 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 644282001865 GIY-YIG motif/motif A; other site 644282001866 putative active site [active] 644282001867 putative metal binding site [ion binding]; other site 644282001868 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 644282001869 active site clefts [active] 644282001870 zinc binding site [ion binding]; other site 644282001871 dimer interface [polypeptide binding]; other site 644282001872 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 644282001873 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 644282001874 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282001875 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 644282001876 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282001877 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282001878 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 644282001879 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 644282001880 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644282001881 active site 644282001882 metal binding site [ion binding]; metal-binding site 644282001883 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 644282001884 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 644282001885 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282001886 Cysteine-rich domain; Region: CCG; pfam02754 644282001887 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 644282001888 4Fe-4S binding domain; Region: Fer4; cl02805 644282001889 Polysulphide reductase, NrfD; Region: NrfD; cl01295 644282001890 Domain of unknown function (DUF296); Region: DUF296; cl00720 644282001891 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 644282001892 catalytic core [active] 644282001893 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 644282001894 Membrane transport protein; Region: Mem_trans; cl09117 644282001895 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 644282001896 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 644282001897 metal binding site [ion binding]; metal-binding site 644282001898 dimer interface [polypeptide binding]; other site 644282001899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282001900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282001901 active site 644282001902 Dihaem cytochrome c; Region: DHC; pfam09626 644282001903 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 644282001904 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 644282001905 inhibitor-cofactor binding pocket; inhibition site 644282001906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282001907 catalytic residue [active] 644282001908 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644282001909 Helix-turn-helix domains; Region: HTH; cl00088 644282001910 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 644282001911 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 644282001912 active site 644282001913 substrate binding site [chemical binding]; other site 644282001914 cosubstrate binding site; other site 644282001915 catalytic site [active] 644282001916 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 644282001917 nucleoside/Zn binding site; other site 644282001918 dimer interface [polypeptide binding]; other site 644282001919 catalytic motif [active] 644282001920 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 644282001921 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001922 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282001923 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 644282001924 diiron binding motif [ion binding]; other site 644282001925 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282001926 dimer interface [polypeptide binding]; other site 644282001927 putative CheW interface [polypeptide binding]; other site 644282001928 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 644282001929 Cache domain; Region: Cache_1; pfam02743 644282001930 spermine synthase; Region: PLN02823 644282001931 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 644282001932 S-adenosylmethionine binding site [chemical binding]; other site 644282001933 acetyl-CoA synthetase; Provisional; Region: PRK04319 644282001934 AMP-binding enzyme; Region: AMP-binding; cl15778 644282001935 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 644282001936 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 644282001937 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 644282001938 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 644282001939 Cl- selectivity filter; other site 644282001940 Cl- binding residues [ion binding]; other site 644282001941 pore gating glutamate residue; other site 644282001942 dimer interface [polypeptide binding]; other site 644282001943 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 644282001944 FOG: CBS domain [General function prediction only]; Region: COG0517 644282001945 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 644282001946 TPR motif; other site 644282001947 binding surface 644282001948 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 644282001949 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282001950 TPR motif; other site 644282001951 binding surface 644282001952 Protein of unknown function (DUF330); Region: DUF330; cl01135 644282001953 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 644282001954 mce related protein; Region: MCE; pfam02470 644282001955 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 644282001956 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 644282001957 Walker A/P-loop; other site 644282001958 ATP binding site [chemical binding]; other site 644282001959 Q-loop/lid; other site 644282001960 ABC transporter signature motif; other site 644282001961 Walker B; other site 644282001962 D-loop; other site 644282001963 H-loop/switch region; other site 644282001964 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 644282001965 anti sigma factor interaction site; other site 644282001966 regulatory phosphorylation site [posttranslational modification]; other site 644282001967 Permease; Region: Permease; cl00510 644282001968 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 644282001969 active site 644282001970 metal binding site [ion binding]; metal-binding site 644282001971 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 644282001972 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 644282001973 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 644282001974 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282001975 catalytic residue [active] 644282001976 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282001977 putative peptidoglycan binding site; other site 644282001978 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 644282001979 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282001980 putative peptidoglycan binding site; other site 644282001981 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 644282001982 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282001983 putative peptidoglycan binding site; other site 644282001984 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282001985 putative peptidoglycan binding site; other site 644282001986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282001987 Response regulator receiver domain; Region: Response_reg; pfam00072 644282001988 active site 644282001989 phosphorylation site [posttranslational modification] 644282001990 intermolecular recognition site; other site 644282001991 dimerization interface [polypeptide binding]; other site 644282001992 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 644282001993 TPR motif; other site 644282001994 binding surface 644282001995 TPR repeat; Region: TPR_11; pfam13414 644282001996 GAF domain; Region: GAF_2; pfam13185 644282001997 GAF domain; Region: GAF; cl15785 644282001998 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 644282001999 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 644282002000 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 644282002001 ATP binding site [chemical binding]; other site 644282002002 Mg2+ binding site [ion binding]; other site 644282002003 G-X-G motif; other site 644282002004 LabA_like proteins; Region: LabA_like; cd06167 644282002005 putative metal binding site [ion binding]; other site 644282002006 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282002007 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 644282002008 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282002009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002010 active site 644282002011 phosphorylation site [posttranslational modification] 644282002012 intermolecular recognition site; other site 644282002013 dimerization interface [polypeptide binding]; other site 644282002014 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 644282002015 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 644282002016 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 644282002017 ABC-ATPase subunit interface; other site 644282002018 dimer interface [polypeptide binding]; other site 644282002019 putative PBP binding regions; other site 644282002020 biotin synthase; Region: bioB; TIGR00433 644282002021 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 644282002022 FeS/SAM binding site; other site 644282002023 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 644282002024 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 644282002025 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 644282002026 inhibitor-cofactor binding pocket; inhibition site 644282002027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282002028 catalytic residue [active] 644282002029 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 644282002030 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 644282002031 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282002032 catalytic residue [active] 644282002033 AAA domain; Region: AAA_26; pfam13500 644282002034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282002035 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282002036 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 644282002037 Cation transport protein; Region: TrkH; cl10514 644282002038 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 644282002039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002040 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282002041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002042 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282002043 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002044 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 644282002045 putative ADP-binding pocket [chemical binding]; other site 644282002046 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002047 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 644282002048 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002049 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 644282002050 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 644282002051 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 644282002052 Ligand binding site; other site 644282002053 Putative Catalytic site; other site 644282002054 DXD motif; other site 644282002055 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282002056 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 644282002057 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282002058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002059 NAD(P) binding site [chemical binding]; other site 644282002060 active site 644282002061 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 644282002062 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 644282002063 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282002064 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282002065 Helix-turn-helix domains; Region: HTH; cl00088 644282002066 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282002067 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282002068 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282002069 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644282002070 Nif-specific regulatory protein; Region: nifA; TIGR01817 644282002071 GAF domain; Region: GAF; cl15785 644282002072 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 644282002073 Walker A motif; other site 644282002074 ATP binding site [chemical binding]; other site 644282002075 Walker B motif; other site 644282002076 arginine finger; other site 644282002077 Helix-turn-helix domains; Region: HTH; cl00088 644282002078 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 644282002079 Dynamin central region; Region: Dynamin_M; pfam01031 644282002080 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282002081 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 644282002082 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282002083 Cysteine-rich domain; Region: CCG; pfam02754 644282002084 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 644282002085 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 644282002086 PAS fold; Region: PAS_4; pfam08448 644282002087 PAS domain S-box; Region: sensory_box; TIGR00229 644282002088 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 644282002089 GAF domain; Region: GAF_2; pfam13185 644282002090 GAF domain; Region: GAF; cl15785 644282002091 PAS fold; Region: PAS_4; pfam08448 644282002092 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 644282002093 putative active site [active] 644282002094 heme pocket [chemical binding]; other site 644282002095 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 644282002096 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282002097 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 644282002098 dimer interface [polypeptide binding]; other site 644282002099 phosphorylation site [posttranslational modification] 644282002100 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 644282002101 ATP binding site [chemical binding]; other site 644282002102 Mg2+ binding site [ion binding]; other site 644282002103 G-X-G motif; other site 644282002104 Response regulator receiver domain; Region: Response_reg; pfam00072 644282002105 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002106 active site 644282002107 phosphorylation site [posttranslational modification] 644282002108 intermolecular recognition site; other site 644282002109 dimerization interface [polypeptide binding]; other site 644282002110 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 644282002111 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 644282002112 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 644282002113 substrate binding site [chemical binding]; other site 644282002114 active site 644282002115 catalytic residues [active] 644282002116 heterodimer interface [polypeptide binding]; other site 644282002117 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 644282002118 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 644282002119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282002120 catalytic residue [active] 644282002121 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 644282002122 active site 644282002123 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 644282002124 phosphate binding site [ion binding]; other site 644282002125 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 644282002126 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 644282002127 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 644282002128 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282002129 Helix-turn-helix domains; Region: HTH; cl00088 644282002130 Cache domain; Region: Cache_1; pfam02743 644282002131 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 644282002132 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282002133 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 644282002134 putative active site [active] 644282002135 heme pocket [chemical binding]; other site 644282002136 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 644282002137 dimer interface [polypeptide binding]; other site 644282002138 phosphorylation site [posttranslational modification] 644282002139 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 644282002140 ATP binding site [chemical binding]; other site 644282002141 Mg2+ binding site [ion binding]; other site 644282002142 G-X-G motif; other site 644282002143 Response regulator receiver domain; Region: Response_reg; pfam00072 644282002144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002145 active site 644282002146 phosphorylation site [posttranslational modification] 644282002147 intermolecular recognition site; other site 644282002148 dimerization interface [polypeptide binding]; other site 644282002149 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282002150 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 644282002151 ligand binding site [chemical binding]; other site 644282002152 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 644282002153 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 644282002154 ligand binding site [chemical binding]; other site 644282002155 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 644282002156 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 644282002157 G1 box; other site 644282002158 GTP/Mg2+ binding site [chemical binding]; other site 644282002159 Switch I region; other site 644282002160 G2 box; other site 644282002161 G3 box; other site 644282002162 Switch II region; other site 644282002163 G4 box; other site 644282002164 G5 box; other site 644282002165 Nucleoside recognition; Region: Gate; cl00486 644282002166 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 644282002167 Nucleoside recognition; Region: Gate; cl00486 644282002168 FeoA domain; Region: FeoA; cl00838 644282002169 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 644282002170 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 644282002171 DctM-like transporters; Region: DctM; pfam06808 644282002172 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 644282002173 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 644282002174 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 644282002175 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 644282002176 adenylosuccinate lyase; Provisional; Region: PRK07492 644282002177 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 644282002178 tetramer interface [polypeptide binding]; other site 644282002179 active site 644282002180 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 644282002181 Protein of unknown function (DUF401); Region: DUF401; cl00830 644282002182 SH3 domain-containing protein; Provisional; Region: PRK10884 644282002183 Bacterial SH3 domain; Region: SH3_3; cl02551 644282002184 Response regulator receiver domain; Region: Response_reg; pfam00072 644282002185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002186 active site 644282002187 phosphorylation site [posttranslational modification] 644282002188 intermolecular recognition site; other site 644282002189 dimerization interface [polypeptide binding]; other site 644282002190 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282002191 Zn2+ binding site [ion binding]; other site 644282002192 Mg2+ binding site [ion binding]; other site 644282002193 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 644282002194 Ligand binding site; other site 644282002195 oligomer interface; other site 644282002196 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 644282002197 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 644282002198 inhibitor-cofactor binding pocket; inhibition site 644282002199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282002200 catalytic residue [active] 644282002201 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 644282002202 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 644282002203 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 644282002204 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 644282002205 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 644282002206 GIY-YIG motif/motif A; other site 644282002207 active site 644282002208 catalytic site [active] 644282002209 putative DNA binding site [nucleotide binding]; other site 644282002210 metal binding site [ion binding]; metal-binding site 644282002211 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 644282002212 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 644282002213 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 644282002214 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 644282002215 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 644282002216 GTP binding site; other site 644282002217 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282002218 DNA binding residues [nucleotide binding] 644282002219 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282002220 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 644282002221 PAS domain; Region: PAS_9; pfam13426 644282002222 putative active site [active] 644282002223 heme pocket [chemical binding]; other site 644282002224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282002225 metal binding site [ion binding]; metal-binding site 644282002226 active site 644282002227 I-site; other site 644282002228 PAS domain S-box; Region: sensory_box; TIGR00229 644282002229 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 644282002230 putative active site [active] 644282002231 heme pocket [chemical binding]; other site 644282002232 PAS domain S-box; Region: sensory_box; TIGR00229 644282002233 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 644282002234 putative active site [active] 644282002235 heme pocket [chemical binding]; other site 644282002236 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282002237 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 644282002238 substrate binding site [chemical binding]; other site 644282002239 oxyanion hole (OAH) forming residues; other site 644282002240 trimer interface [polypeptide binding]; other site 644282002241 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 644282002242 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282002243 putative peptidoglycan binding site; other site 644282002244 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 644282002245 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 644282002246 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282002247 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282002248 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644282002249 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282002250 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 644282002251 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282002252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002253 active site 644282002254 phosphorylation site [posttranslational modification] 644282002255 intermolecular recognition site; other site 644282002256 dimerization interface [polypeptide binding]; other site 644282002257 NMT1-like family; Region: NMT1_2; cl15260 644282002258 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 644282002259 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 644282002260 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 644282002261 PAS fold; Region: PAS_4; pfam08448 644282002262 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 644282002263 PAS domain S-box; Region: sensory_box; TIGR00229 644282002264 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 644282002265 putative active site [active] 644282002266 heme pocket [chemical binding]; other site 644282002267 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 644282002268 PAS fold; Region: PAS_3; pfam08447 644282002269 putative active site [active] 644282002270 heme pocket [chemical binding]; other site 644282002271 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282002272 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 644282002273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002274 CoA-ligase; Region: Ligase_CoA; cl02894 644282002275 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 644282002276 Isochorismatase family; Region: Isochorismatase; pfam00857 644282002277 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 644282002278 catalytic triad [active] 644282002279 dimer interface [polypeptide binding]; other site 644282002280 conserved cis-peptide bond; other site 644282002281 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644282002282 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 644282002283 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282002284 dimer interface [polypeptide binding]; other site 644282002285 putative CheW interface [polypeptide binding]; other site 644282002286 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 644282002287 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 644282002288 Metal-binding active site; metal-binding site 644282002289 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 644282002290 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 644282002291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282002292 catalytic residue [active] 644282002293 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 644282002294 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 644282002295 trimerization site [polypeptide binding]; other site 644282002296 active site 644282002297 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 644282002298 NifU-like domain; Region: NifU; cl00484 644282002299 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 644282002300 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 644282002301 dimer interface [polypeptide binding]; other site 644282002302 substrate binding site [chemical binding]; other site 644282002303 metal binding site [ion binding]; metal-binding site 644282002304 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 644282002305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282002306 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 644282002307 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 644282002308 non-specific DNA binding site [nucleotide binding]; other site 644282002309 salt bridge; other site 644282002310 sequence-specific DNA binding site [nucleotide binding]; other site 644282002311 Cupin domain; Region: Cupin_2; cl09118 644282002312 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 644282002313 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 644282002314 active site 644282002315 FMN binding site [chemical binding]; other site 644282002316 substrate binding site [chemical binding]; other site 644282002317 3Fe-4S cluster binding site [ion binding]; other site 644282002318 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 644282002319 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282002320 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282002321 Domain of unknown function DUF21; Region: DUF21; pfam01595 644282002322 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 644282002323 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644282002324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002325 TIGR01777 family protein; Region: yfcH 644282002326 NAD(P) binding site [chemical binding]; other site 644282002327 active site 644282002328 Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]; Region: NrdD; COG1328 644282002329 ATP cone domain; Region: ATP-cone; pfam03477 644282002330 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 644282002331 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 644282002332 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 644282002333 FeS/SAM binding site; other site 644282002334 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 644282002335 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 644282002336 motif II; other site 644282002337 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 644282002338 putative MPT binding site; other site 644282002339 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 644282002340 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 644282002341 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 644282002342 S-adenosylmethionine binding site [chemical binding]; other site 644282002343 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 644282002344 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 644282002345 active site 644282002346 ADP/pyrophosphate binding site [chemical binding]; other site 644282002347 dimerization interface [polypeptide binding]; other site 644282002348 allosteric effector site; other site 644282002349 fructose-1,6-bisphosphate binding site; other site 644282002350 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 644282002351 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 644282002352 active site 644282002353 metal binding site [ion binding]; metal-binding site 644282002354 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 644282002355 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282002356 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 644282002357 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 644282002358 putative substrate translocation pore; other site 644282002359 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 644282002360 putative metal binding site; other site 644282002361 outer membrane N-deacetylase; Provisional; Region: hmsF; PRK14581 644282002362 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 644282002363 putative active site [active] 644282002364 putative metal binding site [ion binding]; other site 644282002365 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 644282002366 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 644282002367 ribonuclease III; Reviewed; Region: rnc; PRK00102 644282002368 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 644282002369 dimerization interface [polypeptide binding]; other site 644282002370 active site 644282002371 metal binding site [ion binding]; metal-binding site 644282002372 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 644282002373 dsRNA binding site [nucleotide binding]; other site 644282002374 GTPase Era; Reviewed; Region: era; PRK00089 644282002375 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 644282002376 G1 box; other site 644282002377 GTP/Mg2+ binding site [chemical binding]; other site 644282002378 Switch I region; other site 644282002379 G2 box; other site 644282002380 Switch II region; other site 644282002381 G3 box; other site 644282002382 G4 box; other site 644282002383 G5 box; other site 644282002384 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 644282002385 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644282002386 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 644282002387 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 644282002388 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282002389 catalytic residue [active] 644282002390 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 644282002391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002392 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 644282002393 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 644282002394 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 644282002395 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 644282002396 protein binding site [polypeptide binding]; other site 644282002397 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 644282002398 protein binding site [polypeptide binding]; other site 644282002399 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14614 644282002400 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 644282002401 SpoVG; Region: SpoVG; cl00915 644282002402 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 644282002403 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 644282002404 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282002405 active site 644282002406 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 644282002407 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 644282002408 5S rRNA interface [nucleotide binding]; other site 644282002409 CTC domain interface [polypeptide binding]; other site 644282002410 L16 interface [polypeptide binding]; other site 644282002411 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 644282002412 putative active site [active] 644282002413 catalytic residue [active] 644282002414 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 644282002415 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 644282002416 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 644282002417 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 644282002418 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 644282002419 RNA binding surface [nucleotide binding]; other site 644282002420 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 644282002421 active site 644282002422 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 644282002423 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 644282002424 CoA-binding site [chemical binding]; other site 644282002425 ATP-binding [chemical binding]; other site 644282002426 transcription termination factor Rho; Provisional; Region: rho; PRK09376 644282002427 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 644282002428 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 644282002429 RNA binding site [nucleotide binding]; other site 644282002430 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 644282002431 multimer interface [polypeptide binding]; other site 644282002432 Walker A motif; other site 644282002433 ATP binding site [chemical binding]; other site 644282002434 Walker B motif; other site 644282002435 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 644282002436 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 644282002437 peptide chain release factor 1; Validated; Region: prfA; PRK00591 644282002438 RF-1 domain; Region: RF-1; cl02875 644282002439 RF-1 domain; Region: RF-1; cl02875 644282002440 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 644282002441 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 644282002442 S-adenosylmethionine binding site [chemical binding]; other site 644282002443 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 644282002444 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 644282002445 hinge; other site 644282002446 active site 644282002447 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 644282002448 rRNA interaction site [nucleotide binding]; other site 644282002449 S8 interaction site; other site 644282002450 putative laminin-1 binding site; other site 644282002451 elongation factor Ts; Reviewed; Region: tsf; PRK12332 644282002452 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 644282002453 Elongation factor TS; Region: EF_TS; pfam00889 644282002454 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 644282002455 putative nucleotide binding site [chemical binding]; other site 644282002456 uridine monophosphate binding site [chemical binding]; other site 644282002457 homohexameric interface [polypeptide binding]; other site 644282002458 ribosome recycling factor; Reviewed; Region: frr; PRK00083 644282002459 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 644282002460 hinge region; other site 644282002461 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 644282002462 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 644282002463 catalytic residue [active] 644282002464 putative FPP diphosphate binding site; other site 644282002465 putative FPP binding hydrophobic cleft; other site 644282002466 dimer interface [polypeptide binding]; other site 644282002467 putative IPP diphosphate binding site; other site 644282002468 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 644282002469 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 644282002470 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 644282002471 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 644282002472 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 644282002473 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 644282002474 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 644282002475 active site 644282002476 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 644282002477 protein binding site [polypeptide binding]; other site 644282002478 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 644282002479 putative substrate binding region [chemical binding]; other site 644282002480 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 644282002481 Protein of unknown function (DUF541); Region: SIMPL; cl01077 644282002482 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 644282002483 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 644282002484 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 644282002485 2-isopropylmalate synthase; Validated; Region: PRK00915 644282002486 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 644282002487 active site 644282002488 catalytic residues [active] 644282002489 metal binding site [ion binding]; metal-binding site 644282002490 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 644282002491 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 644282002492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002493 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 644282002494 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 644282002495 S-adenosylmethionine binding site [chemical binding]; other site 644282002496 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 644282002497 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 644282002498 active site 644282002499 (T/H)XGH motif; other site 644282002500 AMMECR1; Region: AMMECR1; cl00911 644282002501 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 644282002502 nudix motif; other site 644282002503 MOSC domain; Region: MOSC; pfam03473 644282002504 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 644282002505 B3/4 domain; Region: B3_4; cl11458 644282002506 FtsH Extracellular; Region: FtsH_ext; pfam06480 644282002507 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 644282002508 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 644282002509 Walker A motif; other site 644282002510 ATP binding site [chemical binding]; other site 644282002511 Walker B motif; other site 644282002512 arginine finger; other site 644282002513 Peptidase family M41; Region: Peptidase_M41; pfam01434 644282002514 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 644282002515 dihydropteroate synthase; Region: DHPS; TIGR01496 644282002516 substrate binding pocket [chemical binding]; other site 644282002517 dimer interface [polypeptide binding]; other site 644282002518 inhibitor binding site; inhibition site 644282002519 Uncharacterized conserved protein [Function unknown]; Region: COG1624 644282002520 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 644282002521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 644282002522 YbbR-like protein; Region: YbbR; pfam07949 644282002523 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 644282002524 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 644282002525 active site 644282002526 substrate binding site [chemical binding]; other site 644282002527 metal binding site [ion binding]; metal-binding site 644282002528 Type III pantothenate kinase; Region: Pan_kinase; cl09130 644282002529 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 644282002530 dimer interface [polypeptide binding]; other site 644282002531 catalytic triad [active] 644282002532 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 644282002533 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 644282002534 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282002535 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282002536 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 644282002537 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 644282002538 N-terminal plug; other site 644282002539 ligand-binding site [chemical binding]; other site 644282002540 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 644282002541 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 644282002542 Helix-turn-helix domains; Region: HTH; cl00088 644282002543 Bacterial transcriptional regulator; Region: IclR; pfam01614 644282002544 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 644282002545 hypothetical protein; Provisional; Region: PRK04164 644282002546 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 644282002547 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 644282002548 B12 binding site [chemical binding]; other site 644282002549 cobalt ligand [ion binding]; other site 644282002550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282002551 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 644282002552 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 644282002553 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282002554 Helix-turn-helix domains; Region: HTH; cl00088 644282002555 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 644282002556 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 644282002557 FeS/SAM binding site; other site 644282002558 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 644282002559 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 644282002560 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282002561 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 644282002562 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 644282002563 Cysteine-rich domain; Region: CCG; pfam02754 644282002564 Cysteine-rich domain; Region: CCG; pfam02754 644282002565 PAS domain; Region: PAS_9; pfam13426 644282002566 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 644282002567 PAS domain; Region: PAS_9; pfam13426 644282002568 putative active site [active] 644282002569 heme pocket [chemical binding]; other site 644282002570 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282002571 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 644282002572 Walker A motif; other site 644282002573 ATP binding site [chemical binding]; other site 644282002574 Walker B motif; other site 644282002575 arginine finger; other site 644282002576 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 644282002577 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 644282002578 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 644282002579 putative dimer interface [polypeptide binding]; other site 644282002580 [2Fe-2S] cluster binding site [ion binding]; other site 644282002581 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 644282002582 dimer interface [polypeptide binding]; other site 644282002583 [2Fe-2S] cluster binding site [ion binding]; other site 644282002584 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 644282002585 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 644282002586 SLBB domain; Region: SLBB; pfam10531 644282002587 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 644282002588 coenzyme F420 hydrogenase, subunit gamma; Region: FrhG; TIGR03294 644282002589 4Fe-4S binding domain; Region: Fer4; cl02805 644282002590 4Fe-4S binding domain; Region: Fer4; cl02805 644282002591 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 644282002592 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 644282002593 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282002594 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282002595 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282002596 4Fe-4S binding domain; Region: Fer4; cl02805 644282002597 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 644282002598 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 644282002599 Helix-turn-helix domains; Region: HTH; cl00088 644282002600 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 644282002601 non-specific DNA binding site [nucleotide binding]; other site 644282002602 salt bridge; other site 644282002603 sequence-specific DNA binding site [nucleotide binding]; other site 644282002604 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282002605 Helix-turn-helix domains; Region: HTH; cl00088 644282002606 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 644282002607 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 644282002608 PAS domain; Region: PAS_9; pfam13426 644282002609 PAS domain S-box; Region: sensory_box; TIGR00229 644282002610 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 644282002611 putative active site [active] 644282002612 heme pocket [chemical binding]; other site 644282002613 PAS fold; Region: PAS_3; pfam08447 644282002614 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 644282002615 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 644282002616 PAS domain; Region: PAS_9; pfam13426 644282002617 putative active site [active] 644282002618 heme pocket [chemical binding]; other site 644282002619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282002620 metal binding site [ion binding]; metal-binding site 644282002621 active site 644282002622 I-site; other site 644282002623 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 644282002624 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282002625 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 644282002626 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 644282002627 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 644282002628 Omptin family; Region: Omptin; cl01886 644282002629 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 644282002630 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 644282002631 dimer interface [polypeptide binding]; other site 644282002632 active site 644282002633 metal binding site [ion binding]; metal-binding site 644282002634 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 644282002635 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 644282002636 tetramer interface [polypeptide binding]; other site 644282002637 heme binding pocket [chemical binding]; other site 644282002638 NADPH binding site [chemical binding]; other site 644282002639 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 644282002640 metal binding site 2 [ion binding]; metal-binding site 644282002641 putative DNA binding helix; other site 644282002642 metal binding site 1 [ion binding]; metal-binding site 644282002643 dimer interface [polypeptide binding]; other site 644282002644 structural Zn2+ binding site [ion binding]; other site 644282002645 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 644282002646 CoenzymeA binding site [chemical binding]; other site 644282002647 subunit interaction site [polypeptide binding]; other site 644282002648 PHB binding site; other site 644282002649 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 644282002650 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 644282002651 ligand binding site [chemical binding]; other site 644282002652 flexible hinge region; other site 644282002653 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 644282002654 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 644282002655 metal binding triad; other site 644282002656 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 644282002657 active site 644282002658 substrate binding site [chemical binding]; other site 644282002659 catalytic site [active] 644282002660 acyl-CoA synthetase; Validated; Region: PRK08162 644282002661 AMP-binding enzyme; Region: AMP-binding; cl15778 644282002662 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282002663 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 644282002664 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 644282002665 active site 644282002666 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282002667 GTP-binding protein Der; Reviewed; Region: PRK00093 644282002668 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 644282002669 G1 box; other site 644282002670 GTP/Mg2+ binding site [chemical binding]; other site 644282002671 Switch I region; other site 644282002672 G2 box; other site 644282002673 Switch II region; other site 644282002674 G3 box; other site 644282002675 G4 box; other site 644282002676 G5 box; other site 644282002677 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 644282002678 G1 box; other site 644282002679 GTP/Mg2+ binding site [chemical binding]; other site 644282002680 Switch I region; other site 644282002681 G2 box; other site 644282002682 G3 box; other site 644282002683 Switch II region; other site 644282002684 G4 box; other site 644282002685 G5 box; other site 644282002686 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 644282002687 active site 644282002688 dimer interface [polypeptide binding]; other site 644282002689 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282002690 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 644282002691 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 644282002692 domain interfaces; other site 644282002693 active site 644282002694 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282002695 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 644282002696 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 644282002697 active site 644282002698 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 644282002699 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 644282002700 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282002701 Family description; Region: UvrD_C_2; cl15862 644282002702 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 644282002703 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282002704 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 644282002705 OstA-like protein; Region: OstA; cl00844 644282002706 Organic solvent tolerance protein; Region: OstA_C; pfam04453 644282002707 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 644282002708 23S rRNA interface [nucleotide binding]; other site 644282002709 L3 interface [polypeptide binding]; other site 644282002710 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 644282002711 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 644282002712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002713 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 644282002714 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 644282002715 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 644282002716 dimerization interface 3.5A [polypeptide binding]; other site 644282002717 active site 644282002718 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 644282002719 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 644282002720 ATP binding site [chemical binding]; other site 644282002721 Mg2+ binding site [ion binding]; other site 644282002722 G-X-G motif; other site 644282002723 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 644282002724 ATP binding site [chemical binding]; other site 644282002725 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 644282002726 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 644282002727 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282002728 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 644282002729 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 644282002730 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 644282002731 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 644282002732 active site 644282002733 dimer interface [polypeptide binding]; other site 644282002734 motif 1; other site 644282002735 motif 2; other site 644282002736 motif 3; other site 644282002737 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 644282002738 anticodon binding site; other site 644282002739 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 644282002740 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 644282002741 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 644282002742 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 644282002743 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 644282002744 23S rRNA binding site [nucleotide binding]; other site 644282002745 L21 binding site [polypeptide binding]; other site 644282002746 L13 binding site [polypeptide binding]; other site 644282002747 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 644282002748 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 644282002749 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 644282002750 dimer interface [polypeptide binding]; other site 644282002751 motif 1; other site 644282002752 active site 644282002753 motif 2; other site 644282002754 motif 3; other site 644282002755 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 644282002756 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 644282002757 putative tRNA-binding site [nucleotide binding]; other site 644282002758 B3/4 domain; Region: B3_4; cl11458 644282002759 tRNA synthetase B5 domain; Region: B5; cl08394 644282002760 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 644282002761 dimer interface [polypeptide binding]; other site 644282002762 motif 1; other site 644282002763 motif 3; other site 644282002764 motif 2; other site 644282002765 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 644282002766 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 644282002767 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282002768 DNA binding residues [nucleotide binding] 644282002769 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 644282002770 active site 644282002771 NTP binding site [chemical binding]; other site 644282002772 metal binding triad [ion binding]; metal-binding site 644282002773 antibiotic binding site [chemical binding]; other site 644282002774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282002775 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 644282002776 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 644282002777 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 644282002778 active site 644282002779 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 644282002780 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 644282002781 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 644282002782 Surface antigen; Region: Bac_surface_Ag; cl03097 644282002783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 644282002784 Family of unknown function (DUF490); Region: DUF490; pfam04357 644282002785 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282002786 BON domain; Region: BON; cl02771 644282002787 OpgC protein; Region: OpgC_C; cl00792 644282002788 Helix-turn-helix domains; Region: HTH; cl00088 644282002789 Integrase core domain; Region: rve; cl01316 644282002790 Integrase core domain; Region: rve_3; cl15866 644282002791 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 644282002792 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 644282002793 active site 644282002794 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282002795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002796 active site 644282002797 phosphorylation site [posttranslational modification] 644282002798 intermolecular recognition site; other site 644282002799 dimerization interface [polypeptide binding]; other site 644282002800 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 644282002801 Walker A motif; other site 644282002802 ATP binding site [chemical binding]; other site 644282002803 Walker B motif; other site 644282002804 arginine finger; other site 644282002805 Helix-turn-helix domains; Region: HTH; cl00088 644282002806 Response regulator receiver domain; Region: Response_reg; pfam00072 644282002807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002808 active site 644282002809 phosphorylation site [posttranslational modification] 644282002810 intermolecular recognition site; other site 644282002811 dimerization interface [polypeptide binding]; other site 644282002812 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 644282002813 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 644282002814 homodimer interface [polypeptide binding]; other site 644282002815 substrate-cofactor binding pocket; other site 644282002816 catalytic residue [active] 644282002817 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 644282002818 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 644282002819 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 644282002820 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 644282002821 GatB domain; Region: GatB_Yqey; cl11497 644282002822 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 644282002823 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 644282002824 putative substrate translocation pore; other site 644282002825 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 644282002826 Ligand Binding Site [chemical binding]; other site 644282002827 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 644282002828 Protein of unknown function (DUF342); Region: DUF342; pfam03961 644282002829 AMP-binding enzyme; Region: AMP-binding; cl15778 644282002830 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 644282002831 TfoX N-terminal domain; Region: TfoX_N; cl01167 644282002832 Helix-turn-helix domains; Region: HTH; cl00088 644282002833 LexA repressor; Validated; Region: PRK00215 644282002834 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 644282002835 Catalytic site [active] 644282002836 HDOD domain; Region: HDOD; pfam08668 644282002837 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 644282002838 CoenzymeA binding site [chemical binding]; other site 644282002839 subunit interaction site [polypeptide binding]; other site 644282002840 PHB binding site; other site 644282002841 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 644282002842 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 644282002843 AMP-binding enzyme; Region: AMP-binding; cl15778 644282002844 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282002845 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282002846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002847 active site 644282002848 phosphorylation site [posttranslational modification] 644282002849 intermolecular recognition site; other site 644282002850 dimerization interface [polypeptide binding]; other site 644282002851 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 644282002852 Walker A motif; other site 644282002853 ATP binding site [chemical binding]; other site 644282002854 Walker B motif; other site 644282002855 arginine finger; other site 644282002856 PAS domain S-box; Region: sensory_box; TIGR00229 644282002857 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 644282002858 putative active site [active] 644282002859 heme pocket [chemical binding]; other site 644282002860 PAS domain S-box; Region: sensory_box; TIGR00229 644282002861 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 644282002862 histidine kinase; Provisional; Region: PRK13557 644282002863 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 644282002864 putative active site [active] 644282002865 heme pocket [chemical binding]; other site 644282002866 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 644282002867 dimer interface [polypeptide binding]; other site 644282002868 phosphorylation site [posttranslational modification] 644282002869 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 644282002870 ATP binding site [chemical binding]; other site 644282002871 Mg2+ binding site [ion binding]; other site 644282002872 G-X-G motif; other site 644282002873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282002874 active site 644282002875 phosphorylation site [posttranslational modification] 644282002876 intermolecular recognition site; other site 644282002877 dimerization interface [polypeptide binding]; other site 644282002878 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 644282002879 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 644282002880 active site 644282002881 DNA polymerase IV; Validated; Region: PRK02406 644282002882 DNA binding site [nucleotide binding] 644282002883 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 644282002884 active site 644282002885 dimerization interface [polypeptide binding]; other site 644282002886 poly(A) polymerase; Region: pcnB; TIGR01942 644282002887 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 644282002888 active site 644282002889 NTP binding site [chemical binding]; other site 644282002890 metal binding triad [ion binding]; metal-binding site 644282002891 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 644282002892 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282002893 4Fe-4S binding domain; Region: Fer4; cl02805 644282002894 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 644282002895 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 644282002896 Walker A motif; other site 644282002897 homodimer interface [polypeptide binding]; other site 644282002898 ATP binding site [chemical binding]; other site 644282002899 hydroxycobalamin binding site [chemical binding]; other site 644282002900 Walker B motif; other site 644282002901 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 644282002902 Nitrogen regulatory protein P-II; Region: P-II; cl00412 644282002903 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282002904 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 644282002905 Nitrogen regulatory protein P-II; Region: P-II; cl00412 644282002906 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282002907 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 644282002908 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 644282002909 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 644282002910 dimer interface [polypeptide binding]; other site 644282002911 motif 1; other site 644282002912 active site 644282002913 motif 2; other site 644282002914 motif 3; other site 644282002915 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 644282002916 anticodon binding site; other site 644282002917 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 644282002918 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 644282002919 dimer interface [polypeptide binding]; other site 644282002920 anticodon binding site; other site 644282002921 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 644282002922 homodimer interface [polypeptide binding]; other site 644282002923 motif 1; other site 644282002924 active site 644282002925 motif 2; other site 644282002926 GAD domain; Region: GAD; pfam02938 644282002927 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 644282002928 motif 3; other site 644282002929 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282002930 putative peptidoglycan binding site; other site 644282002931 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 644282002932 carboxyltransferase (CT) interaction site; other site 644282002933 biotinylation site [posttranslational modification]; other site 644282002934 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 644282002935 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 644282002936 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 644282002937 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 644282002938 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 644282002939 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 644282002940 B12 binding site [chemical binding]; other site 644282002941 cobalt ligand [ion binding]; other site 644282002942 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282002943 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 644282002944 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 644282002945 dimer interface [polypeptide binding]; other site 644282002946 PYR/PP interface [polypeptide binding]; other site 644282002947 TPP binding site [chemical binding]; other site 644282002948 substrate binding site [chemical binding]; other site 644282002949 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 644282002950 TPP-binding site; other site 644282002951 4Fe-4S binding domain; Region: Fer4; cl02805 644282002952 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 644282002953 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 644282002954 ribosome maturation protein RimP; Reviewed; Region: PRK00092 644282002955 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 644282002956 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 644282002957 Sm1 motif; other site 644282002958 D3 - B interaction site; other site 644282002959 D1 - D2 interaction site; other site 644282002960 Hfq - Hfq interaction site; other site 644282002961 RNA binding pocket [nucleotide binding]; other site 644282002962 Sm2 motif; other site 644282002963 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 644282002964 NusA N-terminal domain; Region: NusA_N; pfam08529 644282002965 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 644282002966 RNA binding site [nucleotide binding]; other site 644282002967 homodimer interface [polypeptide binding]; other site 644282002968 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 644282002969 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 644282002970 G-X-X-G motif; other site 644282002971 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 644282002972 putative RNA binding cleft [nucleotide binding]; other site 644282002973 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 644282002974 translation initiation factor IF-2; Region: IF-2; TIGR00487 644282002975 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 644282002976 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 644282002977 G1 box; other site 644282002978 putative GEF interaction site [polypeptide binding]; other site 644282002979 GTP/Mg2+ binding site [chemical binding]; other site 644282002980 Switch I region; other site 644282002981 G2 box; other site 644282002982 G3 box; other site 644282002983 Switch II region; other site 644282002984 G4 box; other site 644282002985 G5 box; other site 644282002986 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 644282002987 Translation-initiation factor 2; Region: IF-2; pfam11987 644282002988 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 644282002989 Protein of unknown function (DUF503); Region: DUF503; cl00669 644282002990 Ribosome-binding factor A; Region: RBFA; cl00542 644282002991 DHH family; Region: DHH; pfam01368 644282002992 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 644282002993 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 644282002994 RNA binding site [nucleotide binding]; other site 644282002995 active site 644282002996 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 644282002997 16S/18S rRNA binding site [nucleotide binding]; other site 644282002998 S13e-L30e interaction site [polypeptide binding]; other site 644282002999 25S rRNA binding site [nucleotide binding]; other site 644282003000 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 644282003001 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 644282003002 RNase E interface [polypeptide binding]; other site 644282003003 trimer interface [polypeptide binding]; other site 644282003004 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 644282003005 RNase E interface [polypeptide binding]; other site 644282003006 trimer interface [polypeptide binding]; other site 644282003007 active site 644282003008 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 644282003009 putative nucleic acid binding region [nucleotide binding]; other site 644282003010 G-X-X-G motif; other site 644282003011 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 644282003012 RNA binding site [nucleotide binding]; other site 644282003013 domain interface; other site 644282003014 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 644282003015 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 644282003016 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 644282003017 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 644282003018 trimer interface [polypeptide binding]; other site 644282003019 active site 644282003020 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282003021 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 644282003022 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644282003023 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 644282003024 Walker A motif; other site 644282003025 ATP binding site [chemical binding]; other site 644282003026 Walker B motif; other site 644282003027 arginine finger; other site 644282003028 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 644282003029 Protein of unknown function DUF111; Region: DUF111; cl03398 644282003030 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 644282003031 putative dimer interface [polypeptide binding]; other site 644282003032 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 644282003033 putative dimer interface [polypeptide binding]; other site 644282003034 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]; Region: eRF1; COG1503 644282003035 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282003036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003037 active site 644282003038 phosphorylation site [posttranslational modification] 644282003039 intermolecular recognition site; other site 644282003040 dimerization interface [polypeptide binding]; other site 644282003041 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 644282003042 Walker A motif; other site 644282003043 ATP binding site [chemical binding]; other site 644282003044 Walker B motif; other site 644282003045 arginine finger; other site 644282003046 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 644282003047 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 644282003048 binding surface 644282003049 TPR motif; other site 644282003050 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282003051 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 644282003052 binding surface 644282003053 TPR motif; other site 644282003054 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 644282003055 binding surface 644282003056 TPR motif; other site 644282003057 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 644282003058 binding surface 644282003059 TPR motif; other site 644282003060 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282003061 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282003062 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003063 active site 644282003064 phosphorylation site [posttranslational modification] 644282003065 intermolecular recognition site; other site 644282003066 dimerization interface [polypeptide binding]; other site 644282003067 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 644282003068 Walker A motif; other site 644282003069 ATP binding site [chemical binding]; other site 644282003070 Walker B motif; other site 644282003071 arginine finger; other site 644282003072 Helix-turn-helix domains; Region: HTH; cl00088 644282003073 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 644282003074 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 644282003075 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 644282003076 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 644282003077 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 644282003078 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 644282003079 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 644282003080 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 644282003081 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 644282003082 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 644282003083 MgtE intracellular N domain; Region: MgtE_N; cl15244 644282003084 FliG C-terminal domain; Region: FliG_C; pfam01706 644282003085 type III secretion system protein; Reviewed; Region: PRK06937 644282003086 Flagellar assembly protein FliH; Region: FliH; pfam02108 644282003087 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 644282003088 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 644282003089 Walker A motif/ATP binding site; other site 644282003090 Walker B motif; other site 644282003091 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 644282003092 MgtE intracellular N domain; Region: MgtE_N; cl15244 644282003093 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 644282003094 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 644282003095 putative [Fe4-S4] binding site [ion binding]; other site 644282003096 putative molybdopterin cofactor binding site [chemical binding]; other site 644282003097 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 644282003098 putative molybdopterin cofactor binding site; other site 644282003099 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 644282003100 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 644282003101 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 644282003102 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 644282003103 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 644282003104 DNA binding site [nucleotide binding] 644282003105 catalytic residue [active] 644282003106 H2TH interface [polypeptide binding]; other site 644282003107 putative catalytic residues [active] 644282003108 turnover-facilitating residue; other site 644282003109 intercalation triad [nucleotide binding]; other site 644282003110 8OG recognition residue [nucleotide binding]; other site 644282003111 putative reading head residues; other site 644282003112 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 644282003113 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 644282003114 GAF domain; Region: GAF; cl15785 644282003115 GAF domain; Region: GAF; cl15785 644282003116 GAF domain; Region: GAF_2; pfam13185 644282003117 rod shape-determining protein MreB; Provisional; Region: PRK13927 644282003118 Cell division protein FtsA; Region: FtsA; cl11496 644282003119 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 644282003120 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 644282003121 DivIVA protein; Region: DivIVA; pfam05103 644282003122 DivIVA domain; Region: DivI1A_domain; TIGR03544 644282003123 Plant ATP synthase F0; Region: YMF19; cl07975 644282003124 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 644282003125 putative active site [active] 644282003126 putative CoA binding site [chemical binding]; other site 644282003127 nudix motif; other site 644282003128 metal binding site [ion binding]; metal-binding site 644282003129 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282003130 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 644282003131 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 644282003132 Adenosylhomocysteinase; Provisional; Region: PTZ00075 644282003133 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 644282003134 oligomerization interface [polypeptide binding]; other site 644282003135 active site 644282003136 NAD+ binding site [chemical binding]; other site 644282003137 S-adenosylmethionine synthetase; Validated; Region: PRK05250 644282003138 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 644282003139 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 644282003140 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 644282003141 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 644282003142 tetramerization interface [polypeptide binding]; other site 644282003143 active site 644282003144 Pantoate-beta-alanine ligase; Region: PanC; cd00560 644282003145 pantoate--beta-alanine ligase; Region: panC; TIGR00018 644282003146 active site 644282003147 ATP-binding site [chemical binding]; other site 644282003148 pantoate-binding site; other site 644282003149 HXXH motif; other site 644282003150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003151 UGMP family protein; Validated; Region: PRK09604 644282003152 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 644282003153 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 644282003154 AMP binding site [chemical binding]; other site 644282003155 metal binding site [ion binding]; metal-binding site 644282003156 active site 644282003157 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 644282003158 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 644282003159 active site 644282003160 catalytic residues [active] 644282003161 metal binding site [ion binding]; metal-binding site 644282003162 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 644282003163 aspartate kinase; Reviewed; Region: PRK06635 644282003164 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 644282003165 putative nucleotide binding site [chemical binding]; other site 644282003166 putative catalytic residues [active] 644282003167 putative Mg ion binding site [ion binding]; other site 644282003168 putative aspartate binding site [chemical binding]; other site 644282003169 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 644282003170 putative allosteric regulatory site; other site 644282003171 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 644282003172 putative allosteric regulatory residue; other site 644282003173 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 644282003174 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 644282003175 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 644282003176 putative substrate binding site [chemical binding]; other site 644282003177 putative ATP binding site [chemical binding]; other site 644282003178 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 644282003179 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 the...; Region: PNPsynthase; cd00003 644282003180 active site 644282003181 hydrophilic channel; other site 644282003182 dimerization interface [polypeptide binding]; other site 644282003183 catalytic residues [active] 644282003184 active site lid [active] 644282003185 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 644282003186 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 644282003187 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282003188 Zn2+ binding site [ion binding]; other site 644282003189 Mg2+ binding site [ion binding]; other site 644282003190 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 644282003191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003192 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 644282003193 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 644282003194 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 644282003195 heme-binding residues [chemical binding]; other site 644282003196 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 644282003197 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 644282003198 binding surface 644282003199 TPR motif; other site 644282003200 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 644282003201 binding surface 644282003202 TPR motif; other site 644282003203 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 644282003204 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 644282003205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003206 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 644282003207 catalytic triad [active] 644282003208 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 644282003209 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 644282003210 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 644282003211 Family of unknown function (DUF500); Region: DUF500; cl01109 644282003212 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 644282003213 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 644282003214 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282003215 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282003216 active site 644282003217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282003218 Helix-turn-helix domains; Region: HTH; cl00088 644282003219 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 644282003220 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 644282003221 active site 644282003222 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 644282003223 DUF35 OB-fold domain; Region: DUF35; pfam01796 644282003224 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 644282003225 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 644282003226 NAD binding site [chemical binding]; other site 644282003227 homotetramer interface [polypeptide binding]; other site 644282003228 homodimer interface [polypeptide binding]; other site 644282003229 active site 644282003230 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282003231 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282003232 active site 644282003233 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 644282003234 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282003235 catalytic residue [active] 644282003236 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 644282003237 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 644282003238 catalytic residues [active] 644282003239 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 644282003240 CoenzymeA binding site [chemical binding]; other site 644282003241 subunit interaction site [polypeptide binding]; other site 644282003242 PHB binding site; other site 644282003243 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 644282003244 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 644282003245 homodimer interface [polypeptide binding]; other site 644282003246 oligonucleotide binding site [chemical binding]; other site 644282003247 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 644282003248 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282003249 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 644282003250 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 644282003251 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 644282003252 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282003253 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282003254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003255 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282003256 4Fe-4S binding domain; Region: Fer4; cl02805 644282003257 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 644282003258 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 644282003259 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 644282003260 Cysteine-rich domain; Region: CCG; pfam02754 644282003261 Cysteine-rich domain; Region: CCG; pfam02754 644282003262 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 644282003263 SEC-C motif; Region: SEC-C; pfam02810 644282003264 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003265 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 644282003266 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282003267 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 644282003268 active site 644282003269 TPR repeat; Region: TPR_11; pfam13414 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; Region: TPR_12; pfam13424 644282003274 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 644282003275 binding surface 644282003276 TPR motif; other site 644282003277 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 644282003278 TPR repeat; Region: TPR_11; pfam13414 644282003279 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 644282003280 binding surface 644282003281 TPR motif; other site 644282003282 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 644282003283 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 644282003284 active site 644282003285 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 644282003286 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003287 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282003288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003289 NAD(P) binding site [chemical binding]; other site 644282003290 active site 644282003291 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644282003292 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 644282003293 Probable Catalytic site; other site 644282003294 metal-binding site 644282003295 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282003296 dimer interface [polypeptide binding]; other site 644282003297 putative CheW interface [polypeptide binding]; other site 644282003298 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 644282003299 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 644282003300 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 644282003301 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003302 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 644282003303 Walker A/P-loop; other site 644282003304 ATP binding site [chemical binding]; other site 644282003305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003306 Q-loop/lid; other site 644282003307 ABC transporter signature motif; other site 644282003308 Walker B; other site 644282003309 D-loop; other site 644282003310 H-loop/switch region; other site 644282003311 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 644282003312 putative active site [active] 644282003313 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282003314 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 644282003315 active site 644282003316 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003317 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 644282003318 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644282003319 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 644282003320 Probable Catalytic site; other site 644282003321 metal-binding site 644282003322 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 644282003323 binding surface 644282003324 TPR repeat; Region: TPR_11; pfam13414 644282003325 TPR motif; other site 644282003326 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282003327 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 644282003328 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 644282003329 substrate binding pocket [chemical binding]; other site 644282003330 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 644282003331 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282003332 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 644282003333 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644282003334 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 644282003335 Walker A/P-loop; other site 644282003336 ATP binding site [chemical binding]; other site 644282003337 Q-loop/lid; other site 644282003338 ABC transporter signature motif; other site 644282003339 Walker B; other site 644282003340 D-loop; other site 644282003341 H-loop/switch region; other site 644282003342 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 644282003343 TM-ABC transporter signature motif; other site 644282003344 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 644282003345 TM-ABC transporter signature motif; other site 644282003346 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282003347 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 644282003348 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282003349 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 644282003350 Walker A/P-loop; other site 644282003351 ATP binding site [chemical binding]; other site 644282003352 Q-loop/lid; other site 644282003353 ABC transporter signature motif; other site 644282003354 Walker B; other site 644282003355 D-loop; other site 644282003356 H-loop/switch region; other site 644282003357 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 644282003358 AMP-binding enzyme; Region: AMP-binding; cl15778 644282003359 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 644282003360 NMT1-like family; Region: NMT1_2; cl15260 644282003361 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 644282003362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003364 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 644282003365 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 644282003366 NAD(P) binding site [chemical binding]; other site 644282003367 homodimer interface [polypeptide binding]; other site 644282003368 substrate binding site [chemical binding]; other site 644282003369 active site 644282003370 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 644282003371 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 644282003372 active site 644282003373 catalytic tetrad [active] 644282003374 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 644282003375 ligand binding site; other site 644282003376 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 644282003377 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 644282003378 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282003379 catalytic residue [active] 644282003380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003381 NAD(P) binding site [chemical binding]; other site 644282003382 active site 644282003383 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 644282003384 NeuB family; Region: NeuB; cl00496 644282003385 SAF domain; Region: SAF; cl00555 644282003386 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644282003387 Ligand binding site; other site 644282003388 Putative Catalytic site; other site 644282003389 DXD motif; other site 644282003390 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 644282003391 S-adenosylmethionine binding site [chemical binding]; other site 644282003392 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 644282003393 trimer interface [polypeptide binding]; other site 644282003394 active site 644282003395 substrate binding site [chemical binding]; other site 644282003396 CoA binding site [chemical binding]; other site 644282003397 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 644282003398 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282003399 FeS/SAM binding site; other site 644282003400 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 644282003401 active site 644282003402 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 644282003403 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 644282003404 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282003405 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 644282003406 FeS/SAM binding site; other site 644282003407 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 644282003408 substrate binding site [chemical binding]; other site 644282003409 oxyanion hole (OAH) forming residues; other site 644282003410 trimer interface [polypeptide binding]; other site 644282003411 2-oxoacid:acceptor oxidoreductase, beta subunit, pyruvate/2-ketoisovalerate family; Region: PorB_KorB; TIGR02177 644282003412 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 644282003413 TPP-binding site [chemical binding]; other site 644282003414 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 644282003415 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 644282003416 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282003417 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 644282003418 dimer interface [polypeptide binding]; other site 644282003419 PYR/PP interface [polypeptide binding]; other site 644282003420 TPP binding site [chemical binding]; other site 644282003421 substrate binding site [chemical binding]; other site 644282003422 intracellular protease, PfpI family; Region: PfpI; TIGR01382 644282003423 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 644282003424 proposed catalytic triad [active] 644282003425 conserved cys residue [active] 644282003426 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 644282003427 putative active site pocket [active] 644282003428 dimerization interface [polypeptide binding]; other site 644282003429 putative catalytic residue [active] 644282003430 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; cl15754 644282003431 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 644282003432 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 644282003433 Permutation of conserved domain; other site 644282003434 active site 644282003435 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 644282003436 Sugar fermentation stimulation protein; Region: SfsA; cl00647 644282003437 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 644282003438 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282003439 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 644282003440 FeS/SAM binding site; other site 644282003441 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003442 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 644282003443 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 644282003444 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282003445 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 644282003446 S-adenosylmethionine binding site [chemical binding]; other site 644282003447 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282003448 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 644282003449 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 644282003450 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 644282003451 Probable Catalytic site; other site 644282003452 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 644282003453 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 644282003454 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282003455 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 644282003456 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282003457 Helix-turn-helix domains; Region: HTH; cl00088 644282003458 peptide chain release factor 2; Validated; Region: prfB; PRK00578 644282003459 RF-1 domain; Region: RF-1; cl02875 644282003460 RF-1 domain; Region: RF-1; cl02875 644282003461 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 644282003462 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 644282003463 putative active site [active] 644282003464 catalytic triad [active] 644282003465 putative dimer interface [polypeptide binding]; other site 644282003466 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 644282003467 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 644282003468 Transporter associated domain; Region: CorC_HlyC; cl08393 644282003469 Response regulator receiver domain; Region: Response_reg; pfam00072 644282003470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003471 active site 644282003472 phosphorylation site [posttranslational modification] 644282003473 intermolecular recognition site; other site 644282003474 dimerization interface [polypeptide binding]; other site 644282003475 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 644282003476 putative active site pocket [active] 644282003477 cleavage site 644282003478 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 644282003479 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 644282003480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282003481 dimer interface [polypeptide binding]; other site 644282003482 conserved gate region; other site 644282003483 putative PBP binding loops; other site 644282003484 ABC-ATPase subunit interface; other site 644282003485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282003486 dimer interface [polypeptide binding]; other site 644282003487 conserved gate region; other site 644282003488 putative PBP binding loops; other site 644282003489 ABC-ATPase subunit interface; other site 644282003490 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 644282003491 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 644282003492 Walker A/P-loop; other site 644282003493 ATP binding site [chemical binding]; other site 644282003494 Q-loop/lid; other site 644282003495 ABC transporter signature motif; other site 644282003496 Walker B; other site 644282003497 D-loop; other site 644282003498 H-loop/switch region; other site 644282003499 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 644282003500 PhoU domain; Region: PhoU; pfam01895 644282003501 PhoU domain; Region: PhoU; pfam01895 644282003502 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 644282003503 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003504 active site 644282003505 phosphorylation site [posttranslational modification] 644282003506 intermolecular recognition site; other site 644282003507 dimerization interface [polypeptide binding]; other site 644282003508 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 644282003509 DNA binding site [nucleotide binding] 644282003510 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 644282003511 dimerization interface [polypeptide binding]; other site 644282003512 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282003513 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 644282003514 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 644282003515 dimer interface [polypeptide binding]; other site 644282003516 phosphorylation site [posttranslational modification] 644282003517 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 644282003518 ATP binding site [chemical binding]; other site 644282003519 Mg2+ binding site [ion binding]; other site 644282003520 G-X-G motif; other site 644282003521 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 644282003522 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 644282003523 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 644282003524 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 644282003525 Preprotein translocase subunit; Region: YajC; cl00806 644282003526 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 644282003527 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 644282003528 Protein export membrane protein; Region: SecD_SecF; cl14618 644282003529 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 644282003530 Protein export membrane protein; Region: SecD_SecF; cl14618 644282003531 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644282003532 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 644282003533 P-loop; other site 644282003534 Magnesium ion binding site [ion binding]; other site 644282003535 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 644282003536 Magnesium ion binding site [ion binding]; other site 644282003537 ParB-like partition proteins; Region: parB_part; TIGR00180 644282003538 ParB-like nuclease domain; Region: ParBc; cl02129 644282003539 YacP-like NYN domain; Region: NYN_YacP; cl01491 644282003540 Response regulator receiver domain; Region: Response_reg; pfam00072 644282003541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003542 active site 644282003543 phosphorylation site [posttranslational modification] 644282003544 intermolecular recognition site; other site 644282003545 dimerization interface [polypeptide binding]; other site 644282003546 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 644282003547 phosphorylation site [posttranslational modification] 644282003548 dimer interface [polypeptide binding]; other site 644282003549 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 644282003550 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 644282003551 Predicted RNA-binding protein; Region: RNA_bind_2; cl00662 644282003552 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282003553 Ion channel; Region: Ion_trans_2; cl11596 644282003554 Voltage-dependent potassium channel; Provisional; Region: PLN03192 644282003555 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282003556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003557 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282003558 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 644282003559 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282003560 active site 644282003561 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 644282003562 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 644282003563 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 644282003564 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 644282003565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003566 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 644282003567 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 644282003568 Iron-sulfur protein interface; other site 644282003569 proximal heme binding site [chemical binding]; other site 644282003570 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 644282003571 Iron-sulfur protein interface; other site 644282003572 proximal heme binding site [chemical binding]; other site 644282003573 Fumarase C-terminus; Region: Fumerase_C; cl00795 644282003574 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 644282003575 Protein of unknown function (DUF493); Region: DUF493; cl01102 644282003576 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 644282003577 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 644282003578 enoyl-CoA hydratase; Provisional; Region: PRK06142 644282003579 substrate binding site [chemical binding]; other site 644282003580 oxyanion hole (OAH) forming residues; other site 644282003581 trimer interface [polypeptide binding]; other site 644282003582 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 644282003583 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 644282003584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282003585 homodimer interface [polypeptide binding]; other site 644282003586 catalytic residue [active] 644282003587 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282003588 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003589 active site 644282003590 phosphorylation site [posttranslational modification] 644282003591 intermolecular recognition site; other site 644282003592 dimerization interface [polypeptide binding]; other site 644282003593 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 644282003594 Walker A motif; other site 644282003595 ATP binding site [chemical binding]; other site 644282003596 Walker B motif; other site 644282003597 arginine finger; other site 644282003598 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 644282003599 Zn binding site [ion binding]; other site 644282003600 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 644282003601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003602 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 644282003603 DsrE/DsrF-like family; Region: DrsE; cl00672 644282003604 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 644282003605 dimer interface [polypeptide binding]; other site 644282003606 ssDNA binding site [nucleotide binding]; other site 644282003607 tetramer (dimer of dimers) interface [polypeptide binding]; other site 644282003608 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 644282003609 putative acyl-acceptor binding pocket; other site 644282003610 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 644282003611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003612 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 644282003613 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 644282003614 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282003615 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644282003616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003617 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282003618 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 644282003619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003620 CoA-ligase; Region: Ligase_CoA; cl02894 644282003621 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282003622 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 644282003623 classical (c) SDRs; Region: SDR_c; cd05233 644282003624 NAD(P) binding site [chemical binding]; other site 644282003625 active site 644282003626 enoyl-CoA hydratase; Provisional; Region: PRK07658 644282003627 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 644282003628 substrate binding site [chemical binding]; other site 644282003629 oxyanion hole (OAH) forming residues; other site 644282003630 trimer interface [polypeptide binding]; other site 644282003631 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 644282003632 putative active site [active] 644282003633 putative catalytic site [active] 644282003634 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 644282003635 CoA-transferase family III; Region: CoA_transf_3; pfam02515 644282003636 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 644282003637 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 644282003638 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 644282003639 Vacuolar 14 Fab1-binding region; Region: Vac14_Fab1_bd; pfam12755 644282003640 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282003641 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 644282003642 N-terminal plug; other site 644282003643 ligand-binding site [chemical binding]; other site 644282003644 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 644282003645 S-adenosylmethionine binding site [chemical binding]; other site 644282003646 muropeptide transporter; Validated; Region: ampG; PRK11010 644282003647 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 644282003648 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282003649 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644282003650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282003651 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 644282003652 S-adenosylmethionine binding site [chemical binding]; other site 644282003653 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282003654 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 644282003655 N-terminal plug; other site 644282003656 ligand-binding site [chemical binding]; other site 644282003657 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 644282003658 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 644282003659 FeS/SAM binding site; other site 644282003660 HemN C-terminal domain; Region: HemN_C; pfam06969 644282003661 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 644282003662 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 644282003663 DNA topoisomerase I; Validated; Region: PRK06599 644282003664 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 644282003665 active site 644282003666 interdomain interaction site; other site 644282003667 putative metal-binding site [ion binding]; other site 644282003668 nucleotide binding site [chemical binding]; other site 644282003669 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 644282003670 domain I; other site 644282003671 DNA binding groove [nucleotide binding] 644282003672 phosphate binding site [ion binding]; other site 644282003673 domain II; other site 644282003674 domain III; other site 644282003675 nucleotide binding site [chemical binding]; other site 644282003676 catalytic site [active] 644282003677 domain IV; other site 644282003678 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644282003679 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644282003680 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 644282003681 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644282003682 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 644282003683 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282003684 AMP-binding enzyme; Region: AMP-binding; cl15778 644282003685 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 644282003686 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644282003687 DNA repair protein RadA; Provisional; Region: PRK11823 644282003688 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003689 Walker A motif; other site 644282003690 ATP binding site [chemical binding]; other site 644282003691 Walker B motif; other site 644282003692 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 644282003693 catalytic residues [active] 644282003694 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 644282003695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003696 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282003697 Tetratricopeptide repeat; Region: TPR_18; pfam13512 644282003698 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 644282003699 binding surface 644282003700 TPR motif; other site 644282003701 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 644282003702 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 644282003703 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 644282003704 motif 1; other site 644282003705 active site 644282003706 motif 2; other site 644282003707 motif 3; other site 644282003708 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 644282003709 DHHA1 domain; Region: DHHA1; pfam02272 644282003710 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 644282003711 recombinase A; Provisional; Region: recA; PRK09354 644282003712 hexamer interface [polypeptide binding]; other site 644282003713 Walker A motif; other site 644282003714 ATP binding site [chemical binding]; other site 644282003715 Walker B motif; other site 644282003716 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 644282003717 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 644282003718 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 644282003719 competence damage-inducible protein A; Provisional; Region: PRK00549 644282003720 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 644282003721 putative MPT binding site; other site 644282003722 Competence-damaged protein; Region: CinA; cl00666 644282003723 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282003724 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 644282003725 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 644282003726 S-adenosylmethionine binding site [chemical binding]; other site 644282003727 glutamine synthetase, type I; Region: GlnA; TIGR00653 644282003728 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 644282003729 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 644282003730 Nitrogen regulatory protein P-II; Region: P-II; cl00412 644282003731 Nitrogen regulatory protein P-II; Region: P-II; smart00938 644282003732 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 644282003733 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 644282003734 Nif-specific regulatory protein; Region: nifA; TIGR01817 644282003735 GAF domain; Region: GAF; cl15785 644282003736 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 644282003737 Walker A motif; other site 644282003738 ATP binding site [chemical binding]; other site 644282003739 Walker B motif; other site 644282003740 arginine finger; other site 644282003741 Helix-turn-helix domains; Region: HTH; cl00088 644282003742 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 644282003743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003744 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 644282003745 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 644282003746 active site 644282003747 dimer interface [polypeptide binding]; other site 644282003748 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 644282003749 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 644282003750 active site 644282003751 FMN binding site [chemical binding]; other site 644282003752 substrate binding site [chemical binding]; other site 644282003753 3Fe-4S cluster binding site [ion binding]; other site 644282003754 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 644282003755 domain interface; other site 644282003756 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 644282003757 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 644282003758 catalytic triad [active] 644282003759 NAD synthetase; Provisional; Region: PRK13981 644282003760 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 644282003761 multimer interface [polypeptide binding]; other site 644282003762 active site 644282003763 catalytic triad [active] 644282003764 protein interface 1 [polypeptide binding]; other site 644282003765 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 644282003766 homodimer interface [polypeptide binding]; other site 644282003767 NAD binding pocket [chemical binding]; other site 644282003768 ATP binding pocket [chemical binding]; other site 644282003769 Mg binding site [ion binding]; other site 644282003770 active-site loop [active] 644282003771 Repressor of nif and glnA expression [Transcription]; Region: COG1693 644282003772 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 644282003773 Domain of unknown function DUF128; Region: DUF128; pfam01995 644282003774 Response regulator receiver domain; Region: Response_reg; pfam00072 644282003775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003776 active site 644282003777 phosphorylation site [posttranslational modification] 644282003778 intermolecular recognition site; other site 644282003779 dimerization interface [polypeptide binding]; other site 644282003780 UbiA prenyltransferase family; Region: UbiA; cl00337 644282003781 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 644282003782 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 644282003783 PAS domain S-box; Region: sensory_box; TIGR00229 644282003784 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 644282003785 putative active site [active] 644282003786 heme pocket [chemical binding]; other site 644282003787 PAS domain S-box; Region: sensory_box; TIGR00229 644282003788 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 644282003789 putative active site [active] 644282003790 heme pocket [chemical binding]; other site 644282003791 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 644282003792 PAS fold; Region: PAS_3; pfam08447 644282003793 putative active site [active] 644282003794 heme pocket [chemical binding]; other site 644282003795 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282003796 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 644282003797 putative active site [active] 644282003798 heme pocket [chemical binding]; other site 644282003799 histidine kinase; Provisional; Region: PRK13557 644282003800 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 644282003801 putative active site [active] 644282003802 heme pocket [chemical binding]; other site 644282003803 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 644282003804 dimer interface [polypeptide binding]; other site 644282003805 phosphorylation site [posttranslational modification] 644282003806 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 644282003807 ATP binding site [chemical binding]; other site 644282003808 Mg2+ binding site [ion binding]; other site 644282003809 G-X-G motif; other site 644282003810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282003811 active site 644282003812 phosphorylation site [posttranslational modification] 644282003813 intermolecular recognition site; other site 644282003814 dimerization interface [polypeptide binding]; other site 644282003815 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003816 Walker A/P-loop; other site 644282003817 ATP binding site [chemical binding]; other site 644282003818 Q-loop/lid; other site 644282003819 exonuclease SbcC; Region: sbcc; TIGR00618 644282003820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003821 ABC transporter signature motif; other site 644282003822 Walker B; other site 644282003823 D-loop; other site 644282003824 H-loop/switch region; other site 644282003825 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 644282003826 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282003827 active site 644282003828 metal binding site [ion binding]; metal-binding site 644282003829 DNA binding site [nucleotide binding] 644282003830 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 644282003831 diaminopimelate aminotransferase; Provisional; Region: PRK13983 644282003832 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 644282003833 metal binding site [ion binding]; metal-binding site 644282003834 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 644282003835 LytB protein; Region: LYTB; cl00507 644282003836 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 644282003837 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 644282003838 FMN binding site [chemical binding]; other site 644282003839 active site 644282003840 catalytic residues [active] 644282003841 substrate binding site [chemical binding]; other site 644282003842 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 644282003843 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 644282003844 FeS/SAM binding site; other site 644282003845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282003846 metal binding site [ion binding]; metal-binding site 644282003847 active site 644282003848 I-site; other site 644282003849 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 644282003850 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 644282003851 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 644282003852 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644282003853 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282003854 active site 644282003855 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644282003856 FOG: CBS domain [General function prediction only]; Region: COG0517 644282003857 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 644282003858 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282003859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003860 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 644282003861 MG2 domain; Region: A2M_N; pfam01835 644282003862 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 644282003863 Alpha-2-macroglobulin family; Region: A2M; pfam00207 644282003864 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 644282003865 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 644282003866 Transglycosylase; Region: Transgly; cl07896 644282003867 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 644282003868 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 644282003869 serine O-acetyltransferase; Region: cysE; TIGR01172 644282003870 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 644282003871 trimer interface [polypeptide binding]; other site 644282003872 active site 644282003873 substrate binding site [chemical binding]; other site 644282003874 CoA binding site [chemical binding]; other site 644282003875 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 644282003876 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 644282003877 dimer interface [polypeptide binding]; other site 644282003878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282003879 catalytic residue [active] 644282003880 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 644282003881 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 644282003882 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 644282003883 inhibitor-cofactor binding pocket; inhibition site 644282003884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282003885 catalytic residue [active] 644282003886 Restriction endonuclease; Region: Mrr_cat; cl00516 644282003887 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 644282003888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003889 CoA-ligase; Region: Ligase_CoA; cl02894 644282003890 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 644282003891 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282003892 CoA-ligase; Region: Ligase_CoA; cl02894 644282003893 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 644282003894 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 644282003895 S-adenosylmethionine binding site [chemical binding]; other site 644282003896 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 644282003897 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644282003898 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644282003899 Helix-turn-helix domains; Region: HTH; cl00088 644282003900 Isochorismatase family; Region: Isochorismatase; pfam00857 644282003901 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 644282003902 catalytic triad [active] 644282003903 conserved cis-peptide bond; other site 644282003904 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644282003905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282003906 dimer interface [polypeptide binding]; other site 644282003907 putative CheW interface [polypeptide binding]; other site 644282003908 hypothetical protein; Provisional; Region: PRK08317 644282003909 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003910 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003912 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 644282003913 Walker A/P-loop; other site 644282003914 ATP binding site [chemical binding]; other site 644282003915 Q-loop/lid; other site 644282003916 ABC transporter signature motif; other site 644282003917 Walker B; other site 644282003918 D-loop; other site 644282003919 H-loop/switch region; other site 644282003920 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 644282003921 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 644282003922 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 644282003923 N-terminal plug; other site 644282003924 ligand-binding site [chemical binding]; other site 644282003925 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 644282003926 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 644282003927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282003928 Walker A/P-loop; other site 644282003929 ATP binding site [chemical binding]; other site 644282003930 Q-loop/lid; other site 644282003931 ABC transporter signature motif; other site 644282003932 Walker B; other site 644282003933 D-loop; other site 644282003934 potassium/proton antiporter; Reviewed; Region: PRK05326 644282003935 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282003936 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 644282003937 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 644282003938 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 644282003939 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 644282003940 RNA binding surface [nucleotide binding]; other site 644282003941 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 644282003942 active site 644282003943 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 644282003944 ScpA/B protein; Region: ScpA_ScpB; cl00598 644282003945 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 644282003946 active site 644282003947 putative substrate binding region [chemical binding]; other site 644282003948 DHH family; Region: DHH; pfam01368 644282003949 DHHA1 domain; Region: DHHA1; pfam02272 644282003950 FOG: CBS domain [General function prediction only]; Region: COG0517 644282003951 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 644282003952 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 644282003953 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 644282003954 active site 644282003955 NTP binding site [chemical binding]; other site 644282003956 metal binding triad [ion binding]; metal-binding site 644282003957 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 644282003958 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 644282003959 DNA binding site [nucleotide binding] 644282003960 Int/Topo IB signature motif; other site 644282003961 active site 644282003962 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 644282003963 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 644282003964 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 644282003965 active site 644282003966 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 644282003967 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282003968 Walker A motif; other site 644282003969 ATP binding site [chemical binding]; other site 644282003970 Walker B motif; other site 644282003971 arginine finger; other site 644282003972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282003973 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 644282003974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282003975 dimer interface [polypeptide binding]; other site 644282003976 conserved gate region; other site 644282003977 putative PBP binding loops; other site 644282003978 ABC-ATPase subunit interface; other site 644282003979 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 644282003980 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282003981 dimer interface [polypeptide binding]; other site 644282003982 conserved gate region; other site 644282003983 putative PBP binding loops; other site 644282003984 ABC-ATPase subunit interface; other site 644282003985 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 644282003986 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 644282003987 peptide binding site [polypeptide binding]; other site 644282003988 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 644282003989 putative FMN binding site [chemical binding]; other site 644282003990 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 644282003991 Flavoprotein; Region: Flavoprotein; cl08021 644282003992 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 644282003993 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 644282003994 Fe-S cluster binding site [ion binding]; other site 644282003995 active site 644282003996 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 644282003997 dimer interface [polypeptide binding]; other site 644282003998 active site residues [active] 644282003999 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 644282004000 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 644282004001 transcription termination factor Rho; Provisional; Region: PRK12678 644282004002 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 644282004003 histidinol dehydrogenase; Region: hisD; TIGR00069 644282004004 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 644282004005 NAD binding site [chemical binding]; other site 644282004006 dimerization interface [polypeptide binding]; other site 644282004007 product binding site; other site 644282004008 substrate binding site [chemical binding]; other site 644282004009 zinc binding site [ion binding]; other site 644282004010 catalytic residues [active] 644282004011 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004013 active site 644282004014 phosphorylation site [posttranslational modification] 644282004015 intermolecular recognition site; other site 644282004016 dimerization interface [polypeptide binding]; other site 644282004017 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 644282004018 ATP binding site [chemical binding]; other site 644282004019 Mg2+ binding site [ion binding]; other site 644282004020 G-X-G motif; other site 644282004021 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004023 active site 644282004024 phosphorylation site [posttranslational modification] 644282004025 intermolecular recognition site; other site 644282004026 dimerization interface [polypeptide binding]; other site 644282004027 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 644282004028 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 644282004029 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 644282004030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004031 active site 644282004032 phosphorylation site [posttranslational modification] 644282004033 intermolecular recognition site; other site 644282004034 dimerization interface [polypeptide binding]; other site 644282004035 CheB methylesterase; Region: CheB_methylest; pfam01339 644282004036 CheD chemotactic sensory transduction; Region: CheD; cl00810 644282004037 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 644282004038 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 644282004039 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 644282004040 S-adenosylmethionine binding site [chemical binding]; other site 644282004041 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 644282004042 putative binding surface; other site 644282004043 active site 644282004044 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 644282004045 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 644282004046 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 644282004047 putative binding surface; other site 644282004048 active site 644282004049 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644282004050 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 644282004051 ATP binding site [chemical binding]; other site 644282004052 Mg2+ binding site [ion binding]; other site 644282004053 G-X-G motif; other site 644282004054 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 644282004055 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004057 active site 644282004058 phosphorylation site [posttranslational modification] 644282004059 intermolecular recognition site; other site 644282004060 dimerization interface [polypeptide binding]; other site 644282004061 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 644282004062 anti sigma factor interaction site; other site 644282004063 regulatory phosphorylation site [posttranslational modification]; other site 644282004064 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 644282004065 anti sigma factor interaction site; other site 644282004066 regulatory phosphorylation site [posttranslational modification]; other site 644282004067 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 644282004068 flagellar motor protein MotS; Reviewed; Region: PRK06925 644282004069 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282004070 ligand binding site [chemical binding]; other site 644282004071 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282004072 flagellar motor protein MotP; Reviewed; Region: PRK06926 644282004073 Protein of unknown function, DUF399; Region: DUF399; cl01139 644282004074 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 644282004075 protein binding site [polypeptide binding]; other site 644282004076 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282004077 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 644282004078 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 644282004079 trimer interface [polypeptide binding]; other site 644282004080 putative metal binding site [ion binding]; other site 644282004081 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 644282004082 rRNA binding site [nucleotide binding]; other site 644282004083 predicted 30S ribosome binding site; other site 644282004084 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 644282004085 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 644282004086 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282004087 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 644282004088 synthetase active site [active] 644282004089 NTP binding site [chemical binding]; other site 644282004090 metal binding site [ion binding]; metal-binding site 644282004091 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 644282004092 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 644282004093 prolyl-tRNA synthetase; Provisional; Region: PRK09194 644282004094 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 644282004095 dimer interface [polypeptide binding]; other site 644282004096 motif 1; other site 644282004097 active site 644282004098 motif 2; other site 644282004099 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 644282004100 putative deacylase active site [active] 644282004101 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 644282004102 active site 644282004103 motif 3; other site 644282004104 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 644282004105 anticodon binding site; other site 644282004106 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 644282004107 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 644282004108 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 644282004109 Protein of unknown function (DUF523); Region: DUF523; cl00733 644282004110 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 644282004111 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 644282004112 dimerization interface [polypeptide binding]; other site 644282004113 putative ATP binding site [chemical binding]; other site 644282004114 Rubrerythrin [Energy production and conversion]; Region: COG1592 644282004115 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 644282004116 binuclear metal center [ion binding]; other site 644282004117 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 644282004118 iron binding site [ion binding]; other site 644282004119 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 644282004120 dimer interface [polypeptide binding]; other site 644282004121 catalytic triad [active] 644282004122 peroxidatic and resolving cysteines [active] 644282004123 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 644282004124 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282004125 Helix-turn-helix domains; Region: HTH; cl00088 644282004126 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 644282004127 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 644282004128 putative NAD(P) binding site [chemical binding]; other site 644282004129 putative active site [active] 644282004130 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282004131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004132 active site 644282004133 phosphorylation site [posttranslational modification] 644282004134 intermolecular recognition site; other site 644282004135 dimerization interface [polypeptide binding]; other site 644282004136 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 644282004137 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 644282004138 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 644282004139 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 644282004140 NAD(P) binding site [chemical binding]; other site 644282004141 catalytic residues [active] 644282004142 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 644282004143 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 644282004144 active site 644282004145 NAD binding site [chemical binding]; other site 644282004146 metal binding site [ion binding]; metal-binding site 644282004147 Transcriptional regulator [Transcription]; Region: LysR; COG0583 644282004148 Helix-turn-helix domains; Region: HTH; cl00088 644282004149 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 644282004150 dimerization interface [polypeptide binding]; other site 644282004151 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 644282004152 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 644282004153 G1 box; other site 644282004154 GTP/Mg2+ binding site [chemical binding]; other site 644282004155 Switch I region; other site 644282004156 G2 box; other site 644282004157 G3 box; other site 644282004158 Switch II region; other site 644282004159 G4 box; other site 644282004160 G5 box; other site 644282004161 Nucleoside recognition; Region: Gate; cl00486 644282004162 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 644282004163 Nucleoside recognition; Region: Gate; cl00486 644282004164 FeoA domain; Region: FeoA; cl00838 644282004165 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 644282004166 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 644282004167 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 644282004168 non-specific DNA interactions [nucleotide binding]; other site 644282004169 DNA binding site [nucleotide binding] 644282004170 sequence specific DNA binding site [nucleotide binding]; other site 644282004171 putative cAMP binding site [chemical binding]; other site 644282004172 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 644282004173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282004174 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 644282004175 Walker A/P-loop; other site 644282004176 ATP binding site [chemical binding]; other site 644282004177 Q-loop/lid; other site 644282004178 ABC transporter signature motif; other site 644282004179 Walker B; other site 644282004180 D-loop; other site 644282004181 H-loop/switch region; other site 644282004182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 644282004183 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 644282004184 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 644282004185 Helix-turn-helix domains; Region: HTH; cl00088 644282004186 Integrase core domain; Region: rve; cl01316 644282004187 Integrase core domain; Region: rve_3; cl15866 644282004188 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 644282004189 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282004190 active site 644282004191 nucleotide binding site [chemical binding]; other site 644282004192 HIGH motif; other site 644282004193 KMSKS motif; other site 644282004194 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 644282004195 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282004196 active site 644282004197 isocitrate dehydrogenase; Validated; Region: PRK07362 644282004198 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 644282004199 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 644282004200 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 644282004201 GatB domain; Region: GatB_Yqey; cl11497 644282004202 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 644282004203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282004204 Walker A/P-loop; other site 644282004205 ATP binding site [chemical binding]; other site 644282004206 Q-loop/lid; other site 644282004207 ABC transporter signature motif; other site 644282004208 Walker B; other site 644282004209 D-loop; other site 644282004210 H-loop/switch region; other site 644282004211 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 644282004212 Smr domain; Region: Smr; cl02619 644282004213 DNA primase, catalytic core; Region: dnaG; TIGR01391 644282004214 CHC2 zinc finger; Region: zf-CHC2; cl15369 644282004215 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 644282004216 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 644282004217 active site 644282004218 metal binding site [ion binding]; metal-binding site 644282004219 interdomain interaction site; other site 644282004220 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 644282004221 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 644282004222 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 644282004223 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 644282004224 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282004225 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644282004226 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 644282004227 DNA binding residues [nucleotide binding] 644282004228 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 644282004229 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282004230 Zn2+ binding site [ion binding]; other site 644282004231 Mg2+ binding site [ion binding]; other site 644282004232 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 644282004233 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 644282004234 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 644282004235 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 644282004236 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 644282004237 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282004238 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 644282004239 FAD binding site [chemical binding]; other site 644282004240 homotetramer interface [polypeptide binding]; other site 644282004241 substrate binding pocket [chemical binding]; other site 644282004242 catalytic base [active] 644282004243 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 644282004244 Cupin domain; Region: Cupin_2; cl09118 644282004245 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 644282004246 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 644282004247 Walker A; other site 644282004248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282004249 G4 box; other site 644282004250 G5 box; other site 644282004251 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282004252 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282004253 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 644282004254 AMP-binding enzyme; Region: AMP-binding; cl15778 644282004255 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282004256 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004258 active site 644282004259 phosphorylation site [posttranslational modification] 644282004260 intermolecular recognition site; other site 644282004261 dimerization interface [polypeptide binding]; other site 644282004262 PAS fold; Region: PAS; pfam00989 644282004263 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 644282004264 putative active site [active] 644282004265 heme pocket [chemical binding]; other site 644282004266 GAF domain; Region: GAF_2; pfam13185 644282004267 GAF domain; Region: GAF; cl15785 644282004268 PAS domain S-box; Region: sensory_box; TIGR00229 644282004269 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 644282004270 putative active site [active] 644282004271 heme pocket [chemical binding]; other site 644282004272 PAS domain S-box; Region: sensory_box; TIGR00229 644282004273 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 644282004274 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 644282004275 dimer interface [polypeptide binding]; other site 644282004276 phosphorylation site [posttranslational modification] 644282004277 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 644282004278 ATP binding site [chemical binding]; other site 644282004279 Mg2+ binding site [ion binding]; other site 644282004280 G-X-G motif; other site 644282004281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004282 active site 644282004283 phosphorylation site [posttranslational modification] 644282004284 intermolecular recognition site; other site 644282004285 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004287 active site 644282004288 phosphorylation site [posttranslational modification] 644282004289 intermolecular recognition site; other site 644282004290 dimerization interface [polypeptide binding]; other site 644282004291 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282004292 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282004293 active site 644282004294 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 644282004295 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 644282004296 substrate binding site [chemical binding]; other site 644282004297 oxyanion hole (OAH) forming residues; other site 644282004298 trimer interface [polypeptide binding]; other site 644282004299 putative acyltransferase; Provisional; Region: PRK05790 644282004300 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 644282004301 dimer interface [polypeptide binding]; other site 644282004302 active site 644282004303 putative acyltransferase; Provisional; Region: PRK05790 644282004304 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 644282004305 dimer interface [polypeptide binding]; other site 644282004306 active site 644282004307 Predicted transcriptional regulator [Transcription]; Region: COG2378 644282004308 ApbE family; Region: ApbE; cl00643 644282004309 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 644282004310 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282004311 active site 644282004312 metal binding site [ion binding]; metal-binding site 644282004313 homotetramer interface [polypeptide binding]; other site 644282004314 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 644282004315 nucleotide binding site/active site [active] 644282004316 HIT family signature motif; other site 644282004317 catalytic residue [active] 644282004318 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 644282004319 tetratricopeptide repeat protein; Provisional; Region: PRK11788 644282004320 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 644282004321 binding surface 644282004322 TPR motif; other site 644282004323 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 644282004324 binding surface 644282004325 TPR motif; other site 644282004326 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 644282004327 binding surface 644282004328 TPR motif; other site 644282004329 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 644282004330 TPR motif; other site 644282004331 binding surface 644282004332 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 644282004333 MutS domain I; Region: MutS_I; pfam01624 644282004334 MutS domain II; Region: MutS_II; pfam05188 644282004335 MutS family domain IV; Region: MutS_IV; pfam05190 644282004336 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 644282004337 Walker A/P-loop; other site 644282004338 ATP binding site [chemical binding]; other site 644282004339 Q-loop/lid; other site 644282004340 ABC transporter signature motif; other site 644282004341 Walker B; other site 644282004342 D-loop; other site 644282004343 H-loop/switch region; other site 644282004344 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 644282004345 AMIN domain; Region: AMIN; pfam11741 644282004346 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 644282004347 active site 644282004348 metal binding site [ion binding]; metal-binding site 644282004349 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 644282004350 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 644282004351 putative ligand binding site [chemical binding]; other site 644282004352 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 644282004353 TM-ABC transporter signature motif; other site 644282004354 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 644282004355 TM-ABC transporter signature motif; other site 644282004356 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644282004357 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 644282004358 Walker A/P-loop; other site 644282004359 ATP binding site [chemical binding]; other site 644282004360 Q-loop/lid; other site 644282004361 ABC transporter signature motif; other site 644282004362 Walker B; other site 644282004363 D-loop; other site 644282004364 H-loop/switch region; other site 644282004365 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282004366 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 644282004367 Walker A/P-loop; other site 644282004368 ATP binding site [chemical binding]; other site 644282004369 Q-loop/lid; other site 644282004370 ABC transporter signature motif; other site 644282004371 Walker B; other site 644282004372 D-loop; other site 644282004373 H-loop/switch region; other site 644282004374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282004375 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 644282004376 Coenzyme A binding pocket [chemical binding]; other site 644282004377 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 644282004378 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 644282004379 GDP-binding site [chemical binding]; other site 644282004380 ACT binding site; other site 644282004381 IMP binding site; other site 644282004382 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644282004383 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644282004384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282004385 dimer interface [polypeptide binding]; other site 644282004386 putative CheW interface [polypeptide binding]; other site 644282004387 PAS fold; Region: PAS_4; pfam08448 644282004388 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 644282004389 dimer interface [polypeptide binding]; other site 644282004390 phosphorylation site [posttranslational modification] 644282004391 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 644282004392 ATP binding site [chemical binding]; other site 644282004393 Mg2+ binding site [ion binding]; other site 644282004394 G-X-G motif; other site 644282004395 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 644282004396 non-specific DNA binding site [nucleotide binding]; other site 644282004397 salt bridge; other site 644282004398 sequence-specific DNA binding site [nucleotide binding]; other site 644282004399 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 644282004400 Catalytic site [active] 644282004401 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 644282004402 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 644282004403 S-adenosylmethionine binding site [chemical binding]; other site 644282004404 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 644282004405 S-adenosylmethionine binding site [chemical binding]; other site 644282004406 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 644282004407 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 644282004408 Walker A/P-loop; other site 644282004409 ATP binding site [chemical binding]; other site 644282004410 Q-loop/lid; other site 644282004411 ABC transporter signature motif; other site 644282004412 Walker B; other site 644282004413 D-loop; other site 644282004414 H-loop/switch region; other site 644282004415 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 644282004416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282004417 Walker A/P-loop; other site 644282004418 ATP binding site [chemical binding]; other site 644282004419 Q-loop/lid; other site 644282004420 ABC transporter signature motif; other site 644282004421 Walker B; other site 644282004422 D-loop; other site 644282004423 H-loop/switch region; other site 644282004424 Cobalt transport protein; Region: CbiQ; cl00463 644282004425 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 644282004426 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282004427 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 644282004428 N-terminal plug; other site 644282004429 ligand-binding site [chemical binding]; other site 644282004430 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644282004431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282004432 Protein of unknown function, DUF486; Region: DUF486; cl01236 644282004433 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282004434 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 644282004435 S-adenosylmethionine binding site [chemical binding]; other site 644282004436 PAS fold; Region: PAS; pfam00989 644282004437 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 644282004438 putative active site [active] 644282004439 heme pocket [chemical binding]; other site 644282004440 GAF domain; Region: GAF_2; pfam13185 644282004441 GAF domain; Region: GAF; cl15785 644282004442 PAS fold; Region: PAS; pfam00989 644282004443 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 644282004444 PAS domain S-box; Region: sensory_box; TIGR00229 644282004445 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 644282004446 putative active site [active] 644282004447 heme pocket [chemical binding]; other site 644282004448 PAS domain S-box; Region: sensory_box; TIGR00229 644282004449 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 644282004450 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282004451 putative active site [active] 644282004452 heme pocket [chemical binding]; other site 644282004453 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 644282004454 dimer interface [polypeptide binding]; other site 644282004455 phosphorylation site [posttranslational modification] 644282004456 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 644282004457 ATP binding site [chemical binding]; other site 644282004458 Mg2+ binding site [ion binding]; other site 644282004459 G-X-G motif; other site 644282004460 Response regulator receiver domain; Region: Response_reg; pfam00072 644282004461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004462 active site 644282004463 phosphorylation site [posttranslational modification] 644282004464 intermolecular recognition site; other site 644282004465 dimerization interface [polypeptide binding]; other site 644282004466 DsrE/DsrF-like family; Region: DrsE; cl00672 644282004467 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 644282004468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282004469 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 644282004470 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 644282004471 oligomerization interface [polypeptide binding]; other site 644282004472 active site 644282004473 metal binding site [ion binding]; metal-binding site 644282004474 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 644282004475 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 644282004476 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 644282004477 homodimer interface [polypeptide binding]; other site 644282004478 NADP binding site [chemical binding]; other site 644282004479 substrate binding site [chemical binding]; other site 644282004480 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 644282004481 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 644282004482 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 644282004483 FeS/SAM binding site; other site 644282004484 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 644282004485 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 644282004486 Ferritin-like domain; Region: Ferritin; pfam00210 644282004487 ferroxidase diiron center [ion binding]; other site 644282004488 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 644282004489 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 644282004490 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 644282004491 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 644282004492 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 644282004493 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 644282004494 Walker A motif; other site 644282004495 ATP binding site [chemical binding]; other site 644282004496 Walker B motif; other site 644282004497 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 644282004498 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 644282004499 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 644282004500 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 644282004501 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 644282004502 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 644282004503 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 644282004504 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 644282004505 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 644282004506 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 644282004507 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 644282004508 catalytic core [active] 644282004509 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 644282004510 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 644282004511 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282004512 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 644282004513 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282004514 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 644282004515 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 644282004516 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 644282004517 CRISPR-associated protein; Region: TIGR03986 644282004518 Cupin domain; Region: Cupin_2; cl09118 644282004519 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 644282004520 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 644282004521 inhibitor-cofactor binding pocket; inhibition site 644282004522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282004523 catalytic residue [active] 644282004524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282004525 Coenzyme A binding pocket [chemical binding]; other site 644282004526 threonine synthase; Validated; Region: PRK06260 644282004527 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 644282004528 homodimer interface [polypeptide binding]; other site 644282004529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282004530 catalytic residue [active] 644282004531 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 644282004532 CoenzymeA binding site [chemical binding]; other site 644282004533 subunit interaction site [polypeptide binding]; other site 644282004534 PHB binding site; other site 644282004535 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 644282004536 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 644282004537 ANTAR domain; Region: ANTAR; cl04297 644282004538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 644282004539 Histidine kinase; Region: HisKA_2; cl06527 644282004540 NifU-like domain; Region: NifU; cl00484 644282004541 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 644282004542 ATP binding site [chemical binding]; other site 644282004543 active site 644282004544 substrate binding site [chemical binding]; other site 644282004545 malate dehydrogenase; Reviewed; Region: PRK06223 644282004546 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 644282004547 NAD(P) binding site [chemical binding]; other site 644282004548 dimer interface [polypeptide binding]; other site 644282004549 tetramer (dimer of dimers) interface [polypeptide binding]; other site 644282004550 substrate binding site [chemical binding]; other site 644282004551 DHH family; Region: DHH; pfam01368 644282004552 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 644282004553 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 644282004554 active site 644282004555 catalytic residues [active] 644282004556 metal binding site [ion binding]; metal-binding site 644282004557 homodimer binding site [polypeptide binding]; other site 644282004558 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 644282004559 catalytic residues [active] 644282004560 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282004561 Cysteine-rich domain; Region: CCG; pfam02754 644282004562 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 644282004563 FAD binding domain; Region: FAD_binding_4; pfam01565 644282004564 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282004565 Cysteine-rich domain; Region: CCG; pfam02754 644282004566 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 644282004567 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 644282004568 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 644282004569 active site 644282004570 metal binding site [ion binding]; metal-binding site 644282004571 Catalytic domain of Protein Kinases; Region: PKc; cd00180 644282004572 active site 644282004573 ATP binding site [chemical binding]; other site 644282004574 substrate binding site [chemical binding]; other site 644282004575 activation loop (A-loop); other site 644282004576 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 644282004577 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282004578 Acetokinase family; Region: Acetate_kinase; cl01029 644282004579 propionate/acetate kinase; Provisional; Region: PRK12379 644282004580 phosphate acetyltransferase; Reviewed; Region: PRK05632 644282004581 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282004582 DRTGG domain; Region: DRTGG; cl12147 644282004583 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 644282004584 aminotransferase; Validated; Region: PRK08175 644282004585 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 644282004586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282004587 homodimer interface [polypeptide binding]; other site 644282004588 catalytic residue [active] 644282004589 homoserine dehydrogenase; Provisional; Region: PRK06349 644282004590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282004591 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 644282004592 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 644282004593 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 644282004594 Sulfatase; Region: Sulfatase; cl10460 644282004595 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 644282004596 active site 644282004597 pyruvate phosphate dikinase; Provisional; Region: PRK09279 644282004598 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 644282004599 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 644282004600 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 644282004601 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 644282004602 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 644282004603 dimer interface [polypeptide binding]; other site 644282004604 active site 644282004605 CoA binding pocket [chemical binding]; other site 644282004606 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 644282004607 Moco binding site; other site 644282004608 metal coordination site [ion binding]; other site 644282004609 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282004610 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 644282004611 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 644282004612 dimerization interface [polypeptide binding]; other site 644282004613 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 644282004614 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 644282004615 Rubrerythrin [Energy production and conversion]; Region: COG1592 644282004616 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 644282004617 iron binding site [ion binding]; other site 644282004618 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282004619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004620 active site 644282004621 phosphorylation site [posttranslational modification] 644282004622 intermolecular recognition site; other site 644282004623 dimerization interface [polypeptide binding]; other site 644282004624 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 644282004625 binding surface 644282004626 TPR motif; other site 644282004627 TPR repeat; Region: TPR_11; pfam13414 644282004628 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282004629 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 644282004630 TPR motif; other site 644282004631 binding surface 644282004632 TPR repeat; Region: TPR_11; pfam13414 644282004633 Archaea-specific editing domain of threonyl-tRNA synthetase; Region: tRNA-Thr_ED; pfam08915 644282004634 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 644282004635 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 644282004636 pyruvate kinase; Provisional; Region: PRK05826 644282004637 domain interfaces; other site 644282004638 active site 644282004639 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 644282004640 S-adenosylmethionine binding site [chemical binding]; other site 644282004641 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 644282004642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282004643 Coenzyme A binding pocket [chemical binding]; other site 644282004644 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282004645 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 644282004646 Walker A motif; other site 644282004647 ATP binding site [chemical binding]; other site 644282004648 Walker B motif; other site 644282004649 arginine finger; other site 644282004650 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 644282004651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282004652 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 644282004653 metal ion-dependent adhesion site (MIDAS); other site 644282004654 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 644282004655 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 644282004656 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 644282004657 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 644282004658 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 644282004659 putative substrate-binding site; other site 644282004660 nickel binding site [ion binding]; other site 644282004661 HupF/HypC family; Region: HupF_HypC; cl00394 644282004662 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282004663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282004664 active site 644282004665 phosphorylation site [posttranslational modification] 644282004666 intermolecular recognition site; other site 644282004667 dimerization interface [polypeptide binding]; other site 644282004668 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 644282004669 Walker A motif; other site 644282004670 ATP binding site [chemical binding]; other site 644282004671 Walker B motif; other site 644282004672 arginine finger; other site 644282004673 Helix-turn-helix domains; Region: HTH; cl00088 644282004674 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 644282004675 RNA/DNA hybrid binding site [nucleotide binding]; other site 644282004676 active site 644282004677 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 644282004678 Putative zinc ribbon domain; Region: DUF164; pfam02591 644282004679 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 644282004680 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 644282004681 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 644282004682 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 644282004683 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 644282004684 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 644282004685 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282004686 dimer interface [polypeptide binding]; other site 644282004687 putative CheW interface [polypeptide binding]; other site 644282004688 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 644282004689 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 644282004690 HIGH motif; other site 644282004691 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644282004692 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 644282004693 active site 644282004694 KMSKS motif; other site 644282004695 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 644282004696 tRNA binding surface [nucleotide binding]; other site 644282004697 Lipopolysaccharide-assembly; Region: LptE; cl01125 644282004698 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 644282004699 DNA polymerase III, delta subunit; Region: holA; TIGR01128 644282004700 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 644282004701 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 644282004702 integral membrane protein MviN; Region: mviN; TIGR01695 644282004703 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 644282004704 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282004705 catalytic residue [active] 644282004706 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 644282004707 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 644282004708 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 644282004709 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 644282004710 Putative exonuclease, RdgC; Region: RdgC; cl01122 644282004711 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 644282004712 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 644282004713 putative active site pocket [active] 644282004714 4-fold oligomerization interface [polypeptide binding]; other site 644282004715 metal binding residues [ion binding]; metal-binding site 644282004716 3-fold/trimer interface [polypeptide binding]; other site 644282004717 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 644282004718 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 644282004719 catalytic residues [active] 644282004720 Putative Fe-S cluster; Region: FeS; pfam04060 644282004721 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282004722 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 644282004723 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 644282004724 putative NAD(P) binding site [chemical binding]; other site 644282004725 putative active site [active] 644282004726 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 644282004727 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 644282004728 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282004729 Walker A/P-loop; other site 644282004730 ATP binding site [chemical binding]; other site 644282004731 Q-loop/lid; other site 644282004732 ABC transporter signature motif; other site 644282004733 Walker B; other site 644282004734 D-loop; other site 644282004735 H-loop/switch region; other site 644282004736 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644282004737 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 644282004738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282004739 Walker A/P-loop; other site 644282004740 ATP binding site [chemical binding]; other site 644282004741 Q-loop/lid; other site 644282004742 ABC transporter signature motif; other site 644282004743 Walker B; other site 644282004744 D-loop; other site 644282004745 H-loop/switch region; other site 644282004746 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 644282004747 catalytic residues [active] 644282004748 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 644282004749 RNB domain; Region: RNB; pfam00773 644282004750 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 644282004751 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 644282004752 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 644282004753 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 644282004754 putative trimer interface [polypeptide binding]; other site 644282004755 putative CoA binding site [chemical binding]; other site 644282004756 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 644282004757 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 644282004758 substrate binding site [chemical binding]; other site 644282004759 glutamase interaction surface [polypeptide binding]; other site 644282004760 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 644282004761 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 644282004762 putative active site [active] 644282004763 oxyanion strand; other site 644282004764 catalytic triad [active] 644282004765 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 644282004766 TPR repeat; Region: TPR_11; pfam13414 644282004767 binding surface 644282004768 TPR motif; other site 644282004769 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 644282004770 binding surface 644282004771 TPR motif; other site 644282004772 TPR repeat; Region: TPR_11; pfam13414 644282004773 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 644282004774 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 644282004775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282004776 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 644282004777 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 644282004778 putative active site [active] 644282004779 Plant ATP synthase F0; Region: YMF19; cl07975 644282004780 ATP synthase (E/31 kDa) subunit; Region: vATP-synt_E; pfam01991 644282004781 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 644282004782 V-type ATP synthase subunit A; Provisional; Region: PRK04192 644282004783 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 644282004784 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 644282004785 Walker A motif/ATP binding site; other site 644282004786 Walker B motif; other site 644282004787 V-type ATP synthase subunit B; Provisional; Region: PRK02118 644282004788 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 644282004789 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 644282004790 Walker A motif homologous position; other site 644282004791 Walker B motif; other site 644282004792 ATP synthase subunit D; Region: ATP-synt_D; cl00613 644282004793 V-type ATP synthase subunit I; Validated; Region: PRK05771 644282004794 Heme-binding protein A (HasA); Region: HasA; pfam06438 644282004795 ATP synthase subunit C; Region: ATP-synt_C; cl00466 644282004796 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 644282004797 trigger factor; Region: tig; TIGR00115 644282004798 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 644282004799 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 644282004800 Clp protease; Region: CLP_protease; pfam00574 644282004801 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 644282004802 oligomer interface [polypeptide binding]; other site 644282004803 active site residues [active] 644282004804 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 644282004805 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 644282004806 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 644282004807 Walker A motif; other site 644282004808 ATP binding site [chemical binding]; other site 644282004809 Walker B motif; other site 644282004810 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 644282004811 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 644282004812 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644282004813 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644282004814 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 644282004815 Walker A motif; other site 644282004816 ATP binding site [chemical binding]; other site 644282004817 Walker B motif; other site 644282004818 arginine finger; other site 644282004819 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 644282004820 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 644282004821 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 644282004822 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 644282004823 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 644282004824 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 644282004825 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 644282004826 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 644282004827 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 644282004828 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 644282004829 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282004830 Walker A/P-loop; other site 644282004831 ATP binding site [chemical binding]; other site 644282004832 Q-loop/lid; other site 644282004833 ABC transporter signature motif; other site 644282004834 Walker B; other site 644282004835 D-loop; other site 644282004836 H-loop/switch region; other site 644282004837 potential frameshift: common BLAST hit: gi|224367944|ref|YP_002602107.1| ABC transporter permease 644282004838 FtsX-like permease family; Region: FtsX; cl15850 644282004839 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 644282004840 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 644282004841 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 644282004842 V-type ATP synthase subunit I; Validated; Region: PRK05771 644282004843 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 644282004844 protein binding site [polypeptide binding]; other site 644282004845 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 644282004846 Catalytic dyad [active] 644282004847 GTPase RsgA; Reviewed; Region: PRK01889 644282004848 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 644282004849 GTPase/Zn-binding domain interface [polypeptide binding]; other site 644282004850 GTP/Mg2+ binding site [chemical binding]; other site 644282004851 G4 box; other site 644282004852 G5 box; other site 644282004853 G1 box; other site 644282004854 Switch I region; other site 644282004855 G2 box; other site 644282004856 G3 box; other site 644282004857 Switch II region; other site 644282004858 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 644282004859 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282004860 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 644282004861 NeuB family; Region: NeuB; cl00496 644282004862 CTP synthetase; Validated; Region: pyrG; PRK05380 644282004863 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 644282004864 Catalytic site [active] 644282004865 active site 644282004866 UTP binding site [chemical binding]; other site 644282004867 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 644282004868 active site 644282004869 putative oxyanion hole; other site 644282004870 catalytic triad [active] 644282004871 FOG: CBS domain [General function prediction only]; Region: COG0517 644282004872 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 644282004873 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 644282004874 TIGR00268 family protein; Region: TIGR00268 644282004875 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 644282004876 Ligand Binding Site [chemical binding]; other site 644282004877 glycogen synthase; Provisional; Region: glgA; PRK00654 644282004878 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 644282004879 ADP-binding pocket [chemical binding]; other site 644282004880 homodimer interface [polypeptide binding]; other site 644282004881 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 644282004882 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 644282004883 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282004884 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 644282004885 NAD-dependent deacetylase; Provisional; Region: PRK00481 644282004886 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 644282004887 NAD+ binding site [chemical binding]; other site 644282004888 substrate binding site [chemical binding]; other site 644282004889 Zn binding site [ion binding]; other site 644282004890 Uncharacterized conserved protein [Function unknown]; Region: COG1912 644282004891 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 644282004892 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 644282004893 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 644282004894 PAS domain S-box; Region: sensory_box; TIGR00229 644282004895 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 644282004896 putative active site [active] 644282004897 heme pocket [chemical binding]; other site 644282004898 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 644282004899 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282004900 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 644282004901 dimer interface [polypeptide binding]; other site 644282004902 phosphorylation site [posttranslational modification] 644282004903 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 644282004904 ATP binding site [chemical binding]; other site 644282004905 Mg2+ binding site [ion binding]; other site 644282004906 G-X-G motif; other site 644282004907 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 644282004908 dimer interface [polypeptide binding]; other site 644282004909 Citrate synthase; Region: Citrate_synt; pfam00285 644282004910 active site 644282004911 citrylCoA binding site [chemical binding]; other site 644282004912 NADH binding [chemical binding]; other site 644282004913 cationic pore residues; other site 644282004914 oxalacetate/citrate binding site [chemical binding]; other site 644282004915 coenzyme A binding site [chemical binding]; other site 644282004916 catalytic triad [active] 644282004917 Nitronate monooxygenase; Region: NMO; pfam03060 644282004918 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 644282004919 FMN binding site [chemical binding]; other site 644282004920 substrate binding site [chemical binding]; other site 644282004921 putative catalytic residue [active] 644282004922 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 644282004923 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 644282004924 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 644282004925 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644282004926 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 644282004927 P-loop; other site 644282004928 Magnesium ion binding site [ion binding]; other site 644282004929 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 644282004930 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR_like; cd08242 644282004931 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 644282004932 putative NAD(P) binding site [chemical binding]; other site 644282004933 catalytic Zn binding site [ion binding]; other site 644282004934 structural Zn binding site [ion binding]; other site 644282004935 Putative cyclase; Region: Cyclase; cl00814 644282004936 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 644282004937 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 644282004938 putative active site [active] 644282004939 catalytic triad [active] 644282004940 putative dimer interface [polypeptide binding]; other site 644282004941 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 644282004942 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 644282004943 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 644282004944 active site 644282004945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282004946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644282004947 DNA-binding site [nucleotide binding]; DNA binding site 644282004948 FCD domain; Region: FCD; cl11656 644282004949 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 644282004950 FAD binding domain; Region: FAD_binding_4; pfam01565 644282004951 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 644282004952 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 644282004953 uncharacterized ygcE-like proteins, N-terminal domain; Region: FGGY_ygcE_like; cd07779 644282004954 putative N- and C-terminal domain interface [polypeptide binding]; other site 644282004955 putative active site [active] 644282004956 putative MgATP binding site [chemical binding]; other site 644282004957 catalytic site [active] 644282004958 metal binding site [ion binding]; metal-binding site 644282004959 putative carbohydrate binding site [chemical binding]; other site 644282004960 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 644282004961 TPR motif; other site 644282004962 binding surface 644282004963 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 644282004964 TPR motif; other site 644282004965 binding surface 644282004966 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 644282004967 DHH family; Region: DHH; pfam01368 644282004968 DHHA1 domain; Region: DHHA1; pfam02272 644282004969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282004970 Thymidylate synthase complementing protein; Region: Thy1; cl03630 644282004971 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 644282004972 Catalytic site [active] 644282004973 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 644282004974 Cache domain; Region: Cache_1; pfam02743 644282004975 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282004976 dimer interface [polypeptide binding]; other site 644282004977 putative CheW interface [polypeptide binding]; other site 644282004978 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 644282004979 dimer interface [polypeptide binding]; other site 644282004980 [2Fe-2S] cluster binding site [ion binding]; other site 644282004981 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 644282004982 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 644282004983 SLBB domain; Region: SLBB; pfam10531 644282004984 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 644282004985 4Fe-4S binding domain; Region: Fer4; cl02805 644282004986 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282004987 4Fe-4S binding domain; Region: Fer4; cl02805 644282004988 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 644282004989 dimer interface [polypeptide binding]; other site 644282004990 [2Fe-2S] cluster binding site [ion binding]; other site 644282004991 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 644282004992 ATP binding site [chemical binding]; other site 644282004993 Mg2+ binding site [ion binding]; other site 644282004994 G-X-G motif; other site 644282004995 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 644282004996 PHP-associated; Region: PHP_C; pfam13263 644282004997 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 644282004998 4Fe-4S binding domain; Region: Fer4; cl02805 644282004999 4Fe-4S binding domain; Region: Fer4; cl02805 644282005000 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 644282005001 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 644282005002 DRTGG domain; Region: DRTGG; cl12147 644282005003 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 644282005004 ATP binding site [chemical binding]; other site 644282005005 Mg2+ binding site [ion binding]; other site 644282005006 G-X-G motif; other site 644282005007 DRTGG domain; Region: DRTGG; cl12147 644282005008 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 644282005009 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 644282005010 putative dimer interface [polypeptide binding]; other site 644282005011 [2Fe-2S] cluster binding site [ion binding]; other site 644282005012 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 644282005013 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 644282005014 putative dimer interface [polypeptide binding]; other site 644282005015 active site pocket [active] 644282005016 putative cataytic base [active] 644282005017 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 644282005018 homotrimer interface [polypeptide binding]; other site 644282005019 Walker A motif; other site 644282005020 GTP binding site [chemical binding]; other site 644282005021 Walker B motif; other site 644282005022 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 644282005023 active site 644282005024 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 644282005025 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 644282005026 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 644282005027 active site residue [active] 644282005028 acetyl-CoA acetyltransferase; Provisional; Region: PRK06365 644282005029 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 644282005030 active site 644282005031 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 644282005032 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 644282005033 FAD binding domain; Region: FAD_binding_4; pfam01565 644282005034 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 644282005035 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282005036 Cysteine-rich domain; Region: CCG; pfam02754 644282005037 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 644282005038 sensor protein ZraS; Provisional; Region: PRK10364 644282005039 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 644282005040 dimer interface [polypeptide binding]; other site 644282005041 phosphorylation site [posttranslational modification] 644282005042 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 644282005043 ATP binding site [chemical binding]; other site 644282005044 Mg2+ binding site [ion binding]; other site 644282005045 G-X-G motif; other site 644282005046 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282005047 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005048 active site 644282005049 phosphorylation site [posttranslational modification] 644282005050 intermolecular recognition site; other site 644282005051 dimerization interface [polypeptide binding]; other site 644282005052 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 644282005053 Walker A motif; other site 644282005054 ATP binding site [chemical binding]; other site 644282005055 Walker B motif; other site 644282005056 arginine finger; other site 644282005057 Helix-turn-helix domains; Region: HTH; cl00088 644282005058 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 644282005059 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 644282005060 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 644282005061 ligand binding site; other site 644282005062 oligomer interface; other site 644282005063 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 644282005064 dimer interface [polypeptide binding]; other site 644282005065 N-terminal domain interface [polypeptide binding]; other site 644282005066 sulfate 1 binding site; other site 644282005067 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282005068 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 644282005069 N-terminal plug; other site 644282005070 ligand-binding site [chemical binding]; other site 644282005071 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282005072 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 644282005073 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 644282005074 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 644282005075 putative active site [active] 644282005076 catalytic triad [active] 644282005077 dimer interface [polypeptide binding]; other site 644282005078 GAF domain; Region: GAF; cl15785 644282005079 GAF domain; Region: GAF_2; pfam13185 644282005080 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 644282005081 phosphorylation site [posttranslational modification] 644282005082 dimer interface [polypeptide binding]; other site 644282005083 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 644282005084 HIT family signature motif; other site 644282005085 catalytic residue [active] 644282005086 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644282005087 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 644282005088 ligand binding site [chemical binding]; other site 644282005089 flexible hinge region; other site 644282005090 Haemolysin-III related; Region: HlyIII; cl03831 644282005091 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 644282005092 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644282005093 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282005094 active site 644282005095 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644282005096 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282005097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005098 active site 644282005099 phosphorylation site [posttranslational modification] 644282005100 intermolecular recognition site; other site 644282005101 dimerization interface [polypeptide binding]; other site 644282005102 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 644282005103 Walker A motif; other site 644282005104 ATP binding site [chemical binding]; other site 644282005105 Walker B motif; other site 644282005106 arginine finger; other site 644282005107 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 644282005108 dimerization interface [polypeptide binding]; other site 644282005109 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282005110 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 644282005111 dimer interface [polypeptide binding]; other site 644282005112 phosphorylation site [posttranslational modification] 644282005113 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 644282005114 ATP binding site [chemical binding]; other site 644282005115 Mg2+ binding site [ion binding]; other site 644282005116 G-X-G motif; other site 644282005117 Response regulator receiver domain; Region: Response_reg; pfam00072 644282005118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005119 active site 644282005120 phosphorylation site [posttranslational modification] 644282005121 intermolecular recognition site; other site 644282005122 dimerization interface [polypeptide binding]; other site 644282005123 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 644282005124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005125 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 644282005126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005127 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 644282005128 Cation transport protein; Region: TrkH; cl10514 644282005129 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 644282005130 thiolase; Provisional; Region: PRK06158 644282005131 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 644282005132 active site 644282005133 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 644282005134 DUF35 OB-fold domain; Region: DUF35; pfam01796 644282005135 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 644282005136 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 644282005137 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 644282005138 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644282005139 putative substrate translocation pore; other site 644282005140 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 644282005141 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 644282005142 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 644282005143 Baseplate J-like protein; Region: Baseplate_J; cl01294 644282005144 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 644282005145 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 644282005146 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 644282005147 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 644282005148 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 644282005149 membrane protein P6; Region: PHA01399 644282005150 Phage tail tube protein FII; Region: Phage_tube; cl01390 644282005151 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 644282005152 Domain of unknown function (DUF1834); Region: DUF1834; cl02087 644282005153 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 644282005154 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 644282005155 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 644282005156 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282005157 DNA binding residues [nucleotide binding] 644282005158 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 644282005159 Terminase-like family; Region: Terminase_6; pfam03237 644282005160 Protein of unknown function (DUF935); Region: DUF935; pfam06074 644282005161 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 644282005162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282005163 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 644282005164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005166 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 644282005167 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 644282005168 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 644282005169 IHF dimer interface [polypeptide binding]; other site 644282005170 IHF - DNA interface [nucleotide binding]; other site 644282005171 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 644282005172 AAA domain; Region: AAA_22; pfam13401 644282005173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282005174 ABC transporter signature motif; other site 644282005175 Walker B; other site 644282005176 H-loop/switch region; other site 644282005177 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 644282005178 Integrase core domain; Region: rve; cl01316 644282005179 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 644282005180 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 644282005181 non-specific DNA binding site [nucleotide binding]; other site 644282005182 salt bridge; other site 644282005183 sequence-specific DNA binding site [nucleotide binding]; other site 644282005184 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 644282005185 Catalytic site [active] 644282005186 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 644282005187 PAS domain; Region: PAS_9; pfam13426 644282005188 putative active site [active] 644282005189 heme pocket [chemical binding]; other site 644282005190 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 644282005191 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 644282005192 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 644282005193 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 644282005194 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 644282005195 ABC transporter; Region: ABC_tran_2; pfam12848 644282005196 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 644282005197 conserved hypothetical protein YmdA/YtgF; Region: YmdA_YtgF; TIGR03319 644282005198 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 644282005199 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 644282005200 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 644282005201 Protein of unknown function (DUF342); Region: DUF342; pfam03961 644282005202 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282005203 flagellar motor protein MotS; Reviewed; Region: PRK06925 644282005204 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 644282005205 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282005206 ligand binding site [chemical binding]; other site 644282005207 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 644282005208 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 644282005209 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 644282005210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282005211 dimer interface [polypeptide binding]; other site 644282005212 putative CheW interface [polypeptide binding]; other site 644282005213 RNA 3'-phosphate cyclase; Region: RNA_3prim_cycl; TIGR03399 644282005214 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 with a...; Region: EPT_RTPC-like; cl00288 644282005215 putative active site [active] 644282005216 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 644282005217 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 644282005218 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 644282005219 ATP binding site [chemical binding]; other site 644282005220 putative Mg++ binding site [ion binding]; other site 644282005221 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 644282005222 nucleotide binding region [chemical binding]; other site 644282005223 ATP-binding site [chemical binding]; other site 644282005224 TRCF domain; Region: TRCF; cl04088 644282005225 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 644282005226 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 644282005227 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 644282005228 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 644282005229 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 644282005230 SurA N-terminal domain; Region: SurA_N_3; cl07813 644282005231 PPIC-type PPIASE domain; Region: Rotamase; cl08278 644282005232 SurA N-terminal domain; Region: SurA_N_3; cl07813 644282005233 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 644282005234 PPIC-type PPIASE domain; Region: Rotamase; cl08278 644282005235 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 644282005236 AMP-binding enzyme; Region: AMP-binding; cl15778 644282005237 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 644282005238 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 644282005239 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 644282005240 iron binding site [ion binding]; other site 644282005241 DsrE/DsrF-like family; Region: DrsE; cl00672 644282005242 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282005243 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282005244 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 644282005245 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 644282005246 N-terminal plug; other site 644282005247 ligand-binding site [chemical binding]; other site 644282005248 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282005249 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 644282005250 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282005251 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 644282005252 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282005253 L-type amino acid transporter; Region: 2A0308; TIGR00911 644282005254 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 644282005255 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 644282005256 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282005257 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644282005258 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 644282005259 FtsX-like permease family; Region: FtsX; cl15850 644282005260 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282005261 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 644282005262 Walker A/P-loop; other site 644282005263 ATP binding site [chemical binding]; other site 644282005264 Q-loop/lid; other site 644282005265 ABC transporter signature motif; other site 644282005266 Walker B; other site 644282005267 D-loop; other site 644282005268 H-loop/switch region; other site 644282005269 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282005270 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282005271 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282005272 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 644282005273 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 644282005274 B12 binding site [chemical binding]; other site 644282005275 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 644282005276 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644282005277 DNA-binding site [nucleotide binding]; DNA binding site 644282005278 UTRA domain; Region: UTRA; cl01230 644282005279 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 644282005280 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 644282005281 substrate binding pocket [chemical binding]; other site 644282005282 dimer interface [polypeptide binding]; other site 644282005283 inhibitor binding site; inhibition site 644282005284 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 644282005285 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 644282005286 B12 binding site [chemical binding]; other site 644282005287 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 644282005288 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 644282005289 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 644282005290 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 644282005291 catalytic loop [active] 644282005292 iron binding site [ion binding]; other site 644282005293 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282005294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005295 active site 644282005296 phosphorylation site [posttranslational modification] 644282005297 intermolecular recognition site; other site 644282005298 dimerization interface [polypeptide binding]; other site 644282005299 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 644282005300 Walker A motif; other site 644282005301 ATP binding site [chemical binding]; other site 644282005302 Walker B motif; other site 644282005303 arginine finger; other site 644282005304 Helix-turn-helix domains; Region: HTH; cl00088 644282005305 sensor protein ZraS; Provisional; Region: PRK10364 644282005306 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 644282005307 ATP binding site [chemical binding]; other site 644282005308 Mg2+ binding site [ion binding]; other site 644282005309 G-X-G motif; other site 644282005310 HdeA/HdeB family; Region: HdeA; cl05752 644282005311 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 644282005312 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282005313 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 644282005314 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 644282005315 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 644282005316 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 644282005317 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 644282005318 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 644282005319 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 644282005320 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 644282005321 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 644282005322 active site 644282005323 catalytic triad [active] 644282005324 oxyanion hole [active] 644282005325 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 644282005326 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 644282005327 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 644282005328 Walker A/P-loop; other site 644282005329 ATP binding site [chemical binding]; other site 644282005330 Q-loop/lid; other site 644282005331 ABC transporter signature motif; other site 644282005332 Walker B; other site 644282005333 D-loop; other site 644282005334 H-loop/switch region; other site 644282005335 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 644282005336 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 644282005337 Walker A/P-loop; other site 644282005338 ATP binding site [chemical binding]; other site 644282005339 Q-loop/lid; other site 644282005340 ABC transporter signature motif; other site 644282005341 Walker B; other site 644282005342 D-loop; other site 644282005343 H-loop/switch region; other site 644282005344 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 644282005345 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282005346 ABC-ATPase subunit interface; other site 644282005347 putative PBP binding loops; other site 644282005348 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 644282005349 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 644282005350 dimer interface [polypeptide binding]; other site 644282005351 conserved gate region; other site 644282005352 putative PBP binding loops; other site 644282005353 ABC-ATPase subunit interface; other site 644282005354 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 644282005355 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 644282005356 S-adenosylmethionine binding site [chemical binding]; other site 644282005357 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 644282005358 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 644282005359 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 644282005360 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 644282005361 N-terminal plug; other site 644282005362 ligand-binding site [chemical binding]; other site 644282005363 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 644282005364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005365 CoA-ligase; Region: Ligase_CoA; cl02894 644282005366 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282005367 Helix-turn-helix domains; Region: HTH; cl00088 644282005368 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 644282005369 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 644282005370 ligand binding site [chemical binding]; other site 644282005371 flexible hinge region; other site 644282005372 Helix-turn-helix domains; Region: HTH; cl00088 644282005373 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 644282005374 MatE; Region: MatE; cl10513 644282005375 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 644282005376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282005377 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282005378 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 644282005379 N-terminal plug; other site 644282005380 ligand-binding site [chemical binding]; other site 644282005381 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 644282005382 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 644282005383 S-adenosylmethionine binding site [chemical binding]; other site 644282005384 NMT1-like family; Region: NMT1_2; cl15260 644282005385 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 644282005386 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282005387 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 644282005388 Walker A/P-loop; other site 644282005389 ATP binding site [chemical binding]; other site 644282005390 Q-loop/lid; other site 644282005391 ABC transporter signature motif; other site 644282005392 Walker B; other site 644282005393 D-loop; other site 644282005394 H-loop/switch region; other site 644282005395 Enterobacterial virulence protein IpgD; Region: IpgD; pfam05925 644282005396 CRISPR-associated protein; Region: TIGR03986 644282005397 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282005398 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 644282005399 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 644282005400 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 644282005401 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 644282005402 putative active site [active] 644282005403 putative NTP binding site [chemical binding]; other site 644282005404 putative nucleic acid binding site [nucleotide binding]; other site 644282005405 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 644282005406 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 644282005407 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 644282005408 TIR domain; Region: TIR_2; cl15770 644282005409 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282005410 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282005411 Helix-turn-helix domains; Region: HTH; cl00088 644282005412 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 644282005413 S-adenosylmethionine binding site [chemical binding]; other site 644282005414 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 644282005415 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 644282005416 Ligand binding site [chemical binding]; other site 644282005417 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 644282005418 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 644282005419 Ligand binding site [chemical binding]; other site 644282005420 Electron transfer flavoprotein domain; Region: ETF; pfam01012 644282005421 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 644282005422 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 644282005423 catalytic core [active] 644282005424 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282005425 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282005426 active site 644282005427 Helix-turn-helix domains; Region: HTH; cl00088 644282005428 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 644282005429 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 644282005430 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 644282005431 putative active site [active] 644282005432 putative substrate binding site [chemical binding]; other site 644282005433 ATP binding site [chemical binding]; other site 644282005434 Uncharacterized conserved protein [Function unknown]; Region: COG2006 644282005435 Domain of unknown function (DUF362); Region: DUF362; pfam04015 644282005436 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644282005437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005438 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282005439 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282005440 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 644282005441 Walker A/P-loop; other site 644282005442 ATP binding site [chemical binding]; other site 644282005443 Q-loop/lid; other site 644282005444 ABC transporter signature motif; other site 644282005445 Walker B; other site 644282005446 D-loop; other site 644282005447 H-loop/switch region; other site 644282005448 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644282005449 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 644282005450 Walker A/P-loop; other site 644282005451 ATP binding site [chemical binding]; other site 644282005452 Q-loop/lid; other site 644282005453 ABC transporter signature motif; other site 644282005454 Walker B; other site 644282005455 D-loop; other site 644282005456 H-loop/switch region; other site 644282005457 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 644282005458 TM-ABC transporter signature motif; other site 644282005459 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 644282005460 TM-ABC transporter signature motif; other site 644282005461 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282005462 Phage capsid family; Region: Phage_capsid; pfam05065 644282005463 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 644282005464 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282005465 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 644282005466 polymerase nucleotide-binding site; other site 644282005467 DNA-binding residues [nucleotide binding]; DNA binding site 644282005468 nucleotide binding site [chemical binding]; other site 644282005469 primase nucleotide-binding site [nucleotide binding]; other site 644282005470 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282005471 Walker A motif; other site 644282005472 ATP binding site [chemical binding]; other site 644282005473 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 644282005474 active site 644282005475 Phage Terminase; Region: Terminase_1; pfam03354 644282005476 Helix-turn-helix domains; Region: HTH; cl00088 644282005477 Integrase core domain; Region: rve; cl01316 644282005478 Integrase core domain; Region: rve_3; cl15866 644282005479 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 644282005480 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 644282005481 Int/Topo IB signature motif; other site 644282005482 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 644282005483 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 644282005484 active site 644282005485 Riboflavin kinase; Region: Flavokinase; cl03312 644282005486 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 644282005487 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 644282005488 HflX GTPase family; Region: HflX; cd01878 644282005489 G1 box; other site 644282005490 GTP/Mg2+ binding site [chemical binding]; other site 644282005491 Switch I region; other site 644282005492 G2 box; other site 644282005493 G3 box; other site 644282005494 Switch II region; other site 644282005495 G4 box; other site 644282005496 G5 box; other site 644282005497 replicative DNA helicase; Region: DnaB; TIGR00665 644282005498 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 644282005499 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 644282005500 Walker A motif; other site 644282005501 ATP binding site [chemical binding]; other site 644282005502 Walker B motif; other site 644282005503 DNA binding loops [nucleotide binding] 644282005504 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 644282005505 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 644282005506 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 644282005507 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 644282005508 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 644282005509 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 644282005510 active site 644282005511 8-oxo-dGMP binding site [chemical binding]; other site 644282005512 nudix motif; other site 644282005513 metal binding site [ion binding]; metal-binding site 644282005514 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 644282005515 binding surface 644282005516 TPR motif; other site 644282005517 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 644282005518 binding surface 644282005519 TPR motif; other site 644282005520 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282005521 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 644282005522 TPR motif; other site 644282005523 binding surface 644282005524 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 644282005525 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282005526 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 644282005527 FeS/SAM binding site; other site 644282005528 aspartate aminotransferase; Provisional; Region: PRK06836 644282005529 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 644282005530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282005531 homodimer interface [polypeptide binding]; other site 644282005532 catalytic residue [active] 644282005533 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282005534 Zn2+ binding site [ion binding]; other site 644282005535 Mg2+ binding site [ion binding]; other site 644282005536 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 644282005537 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 644282005538 Ligand Binding Site [chemical binding]; other site 644282005539 ApbE family; Region: ApbE; cl00643 644282005540 ferredoxin; Validated; Region: PRK07118 644282005541 4Fe-4S binding domain; Region: Fer4; cl02805 644282005542 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 644282005543 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 644282005544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005546 putative oxidoreductase; Provisional; Region: PRK12831 644282005547 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 644282005548 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 644282005549 FMN-binding domain; Region: FMN_bind; cl01081 644282005550 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 644282005551 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 644282005552 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 644282005553 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 644282005554 SLBB domain; Region: SLBB; pfam10531 644282005555 4Fe-4S binding domain; Region: Fer4; cl02805 644282005556 Response regulator receiver domain; Region: Response_reg; pfam00072 644282005557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005558 active site 644282005559 phosphorylation site [posttranslational modification] 644282005560 intermolecular recognition site; other site 644282005561 dimerization interface [polypeptide binding]; other site 644282005562 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 644282005563 dimer interface [polypeptide binding]; other site 644282005564 phosphorylation site [posttranslational modification] 644282005565 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 644282005566 ATP binding site [chemical binding]; other site 644282005567 Mg2+ binding site [ion binding]; other site 644282005568 G-X-G motif; other site 644282005569 Response regulator receiver domain; Region: Response_reg; pfam00072 644282005570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005571 active site 644282005572 phosphorylation site [posttranslational modification] 644282005573 intermolecular recognition site; other site 644282005574 dimerization interface [polypeptide binding]; other site 644282005575 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282005576 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 644282005577 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 644282005578 dimer interface [polypeptide binding]; other site 644282005579 PYR/PP interface [polypeptide binding]; other site 644282005580 TPP binding site [chemical binding]; other site 644282005581 substrate binding site [chemical binding]; other site 644282005582 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 644282005583 TPP-binding site; other site 644282005584 4Fe-4S binding domain; Region: Fer4; cl02805 644282005585 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282005586 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 644282005587 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 644282005588 interchain domain interface [polypeptide binding]; other site 644282005589 heme bL binding site [chemical binding]; other site 644282005590 intrachain domain interface; other site 644282005591 heme bH binding site [chemical binding]; other site 644282005592 Qo binding site; other site 644282005593 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 644282005594 iron-sulfur cluster [ion binding]; other site 644282005595 [2Fe-2S] cluster binding site [ion binding]; other site 644282005596 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 644282005597 CPxP motif; other site 644282005598 putative inner membrane protein; Provisional; Region: PRK11099 644282005599 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 644282005600 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 644282005601 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 644282005602 TPR motif; other site 644282005603 binding surface 644282005604 TPR repeat; Region: TPR_11; pfam13414 644282005605 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 644282005606 binding surface 644282005607 TPR motif; other site 644282005608 TPR repeat; Region: TPR_11; pfam13414 644282005609 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 644282005610 OsmC-like protein; Region: OsmC; cl00767 644282005611 CobD/Cbib protein; Region: CobD_Cbib; cl00561 644282005612 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 644282005613 tetramer interfaces [polypeptide binding]; other site 644282005614 binuclear metal-binding site [ion binding]; other site 644282005615 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 644282005616 NodB motif; other site 644282005617 putative active site [active] 644282005618 putative catalytic site [active] 644282005619 Zn binding site [ion binding]; other site 644282005620 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 644282005621 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 644282005622 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 644282005623 protein binding site [polypeptide binding]; other site 644282005624 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 644282005625 Catalytic dyad [active] 644282005626 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282005627 FtsX-like permease family; Region: FtsX; cl15850 644282005628 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 644282005629 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 644282005630 Walker A/P-loop; other site 644282005631 ATP binding site [chemical binding]; other site 644282005632 Q-loop/lid; other site 644282005633 ABC transporter signature motif; other site 644282005634 Walker B; other site 644282005635 D-loop; other site 644282005636 H-loop/switch region; other site 644282005637 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 644282005638 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 644282005639 TPR repeat; Region: TPR_11; pfam13414 644282005640 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 644282005641 binding surface 644282005642 TPR motif; other site 644282005643 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644282005644 Ligand binding site; other site 644282005645 Putative Catalytic site; other site 644282005646 DXD motif; other site 644282005647 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 644282005648 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282005649 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 644282005650 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282005651 acyl-CoA synthetase; Validated; Region: PRK06178 644282005652 AMP-binding enzyme; Region: AMP-binding; cl15778 644282005653 AMP-binding enzyme; Region: AMP-binding; cl15778 644282005654 Helix-turn-helix domains; Region: HTH; cl00088 644282005655 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 644282005656 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 644282005657 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 644282005658 Protein export membrane protein; Region: SecD_SecF; cl14618 644282005659 Protein export membrane protein; Region: SecD_SecF; cl14618 644282005660 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 644282005661 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282005662 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282005663 PAAR motif; Region: PAAR_motif; cl15808 644282005664 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 644282005665 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 644282005666 Peptidase M15; Region: Peptidase_M15_3; cl01194 644282005667 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 644282005668 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 644282005669 Phage-related protein [Function unknown]; Region: COG5412 644282005670 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 644282005671 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 644282005672 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 644282005673 Helix-turn-helix domains; Region: HTH; cl00088 644282005674 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 644282005675 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282005676 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282005677 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282005678 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644282005679 FtsX-like permease family; Region: FtsX; cl15850 644282005680 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 644282005681 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 644282005682 Walker A/P-loop; other site 644282005683 ATP binding site [chemical binding]; other site 644282005684 Q-loop/lid; other site 644282005685 ABC transporter signature motif; other site 644282005686 Walker B; other site 644282005687 D-loop; other site 644282005688 H-loop/switch region; other site 644282005689 Cytochrome C'; Region: Cytochrom_C_2; cl01610 644282005690 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282005691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005692 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 644282005693 chromosome segregation protein; Provisional; Region: PRK02224 644282005694 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 644282005695 Phage portal protein; Region: Phage_portal; pfam04860 644282005696 Terminase-like family; Region: Terminase_6; pfam03237 644282005697 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 644282005698 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 644282005699 DNA binding site [nucleotide binding] 644282005700 Int/Topo IB signature motif; other site 644282005701 active site 644282005702 DNA primase, catalytic core; Region: dnaG; TIGR01391 644282005703 CHC2 zinc finger; Region: zf-CHC2; cl15369 644282005704 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 644282005705 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 644282005706 active site 644282005707 metal binding site [ion binding]; metal-binding site 644282005708 interdomain interaction site; other site 644282005709 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 644282005710 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282005711 Family description; Region: UvrD_C_2; cl15862 644282005712 ERCC4 domain; Region: ERCC4; cl10594 644282005713 Protein of unknown function (DUF669); Region: DUF669; pfam05037 644282005714 AAA domain; Region: AAA_24; pfam13479 644282005715 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 644282005716 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 644282005717 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 644282005718 Helix-turn-helix domains; Region: HTH; cl00088 644282005719 LexA repressor; Validated; Region: PRK00215 644282005720 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 644282005721 Catalytic site [active] 644282005722 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 644282005723 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 644282005724 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 644282005725 catalytic residues [active] 644282005726 catalytic nucleophile [active] 644282005727 Presynaptic Site I dimer interface [polypeptide binding]; other site 644282005728 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644282005729 Synaptic Flat tetramer interface [polypeptide binding]; other site 644282005730 Synaptic Site I dimer interface [polypeptide binding]; other site 644282005731 DNA binding site [nucleotide binding] 644282005732 Recombinase; Region: Recombinase; pfam07508 644282005733 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 644282005734 ParB-like partition proteins; Region: parB_part; TIGR00180 644282005735 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 644282005736 IHF - DNA interface [nucleotide binding]; other site 644282005737 IHF dimer interface [polypeptide binding]; other site 644282005738 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 644282005739 rare lipoprotein A; Region: rlpA; TIGR00413 644282005740 Sporulation related domain; Region: SPOR; cl10051 644282005741 Mechanosensitive ion channel; Region: MS_channel; pfam00924 644282005742 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 644282005743 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282005744 active site 644282005745 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 644282005746 ADP binding site [chemical binding]; other site 644282005747 magnesium binding site [ion binding]; other site 644282005748 putative shikimate binding site; other site 644282005749 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 644282005750 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282005751 Family description; Region: UvrD_C_2; cl15862 644282005752 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 644282005753 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 644282005754 Family description; Region: UvrD_C_2; cl15862 644282005755 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 644282005756 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 644282005757 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 644282005758 active site 644282005759 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282005760 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 644282005761 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 644282005762 active site 644282005763 Zn binding site [ion binding]; other site 644282005764 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 644282005765 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 644282005766 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644282005767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005768 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282005769 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282005770 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 644282005771 substrate binding site [chemical binding]; other site 644282005772 oxyanion hole (OAH) forming residues; other site 644282005773 trimer interface [polypeptide binding]; other site 644282005774 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 644282005775 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 644282005776 dimer interface [polypeptide binding]; other site 644282005777 active site 644282005778 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 644282005779 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 644282005780 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 644282005781 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 644282005782 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 644282005783 motif II; other site 644282005784 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 644282005785 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 644282005786 active site 644282005787 intersubunit interactions; other site 644282005788 catalytic residue [active] 644282005789 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 644282005790 catalytic center binding site [active] 644282005791 ATP binding site [chemical binding]; other site 644282005792 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 644282005793 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 644282005794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282005795 homodimer interface [polypeptide binding]; other site 644282005796 catalytic residue [active] 644282005797 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 644282005798 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 644282005799 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 644282005800 dihydrodipicolinate reductase; Provisional; Region: PRK00048 644282005801 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005802 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 644282005803 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 644282005804 dihydrodipicolinate synthase; Region: dapA; TIGR00674 644282005805 dimer interface [polypeptide binding]; other site 644282005806 active site 644282005807 catalytic residue [active] 644282005808 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 644282005809 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 644282005810 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 644282005811 diaminopimelate decarboxylase; Region: lysA; TIGR01048 644282005812 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 644282005813 active site 644282005814 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644282005815 substrate binding site [chemical binding]; other site 644282005816 catalytic residues [active] 644282005817 dimer interface [polypeptide binding]; other site 644282005818 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; cl00065 644282005819 argininosuccinate lyase; Provisional; Region: PRK00855 644282005820 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 644282005821 active sites [active] 644282005822 tetramer interface [polypeptide binding]; other site 644282005823 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 644282005824 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 644282005825 ANP binding site [chemical binding]; other site 644282005826 Substrate Binding Site II [chemical binding]; other site 644282005827 Substrate Binding Site I [chemical binding]; other site 644282005828 ornithine carbamoyltransferase; Provisional; Region: PRK00779 644282005829 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 644282005830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005831 acetylornithine aminotransferase; Provisional; Region: PRK02627 644282005832 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 644282005833 inhibitor-cofactor binding pocket; inhibition site 644282005834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282005835 catalytic residue [active] 644282005836 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 644282005837 feedback inhibition sensing region; other site 644282005838 homohexameric interface [polypeptide binding]; other site 644282005839 nucleotide binding site [chemical binding]; other site 644282005840 N-acetyl-L-glutamate binding site [chemical binding]; other site 644282005841 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 644282005842 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 644282005843 Walker A motif; other site 644282005844 ATP binding site [chemical binding]; other site 644282005845 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282005846 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 644282005847 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 644282005848 active site 644282005849 HslU subunit interaction site [polypeptide binding]; other site 644282005850 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 644282005851 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 644282005852 DNA binding site [nucleotide binding] 644282005853 Int/Topo IB signature motif; other site 644282005854 active site 644282005855 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 644282005856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282005857 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 644282005858 S-adenosylmethionine binding site [chemical binding]; other site 644282005859 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 644282005860 elongation factor G; Reviewed; Region: PRK12740 644282005861 G1 box; other site 644282005862 putative GEF interaction site [polypeptide binding]; other site 644282005863 GTP/Mg2+ binding site [chemical binding]; other site 644282005864 Switch I region; other site 644282005865 G2 box; other site 644282005866 G3 box; other site 644282005867 Switch II region; other site 644282005868 G4 box; other site 644282005869 G5 box; other site 644282005870 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 644282005871 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 644282005872 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 644282005873 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 644282005874 MPT binding site; other site 644282005875 trimer interface [polypeptide binding]; other site 644282005876 Domain of unknown function (DUF296); Region: DUF296; cl00720 644282005877 Nitronate monooxygenase; Region: NMO; pfam03060 644282005878 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 644282005879 FMN binding site [chemical binding]; other site 644282005880 substrate binding site [chemical binding]; other site 644282005881 putative catalytic residue [active] 644282005882 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 644282005883 NeuB family; Region: NeuB; cl00496 644282005884 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 644282005885 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 644282005886 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 644282005887 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 644282005888 binding surface 644282005889 TPR motif; other site 644282005890 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 644282005891 binding surface 644282005892 TPR motif; other site 644282005893 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 644282005894 binding surface 644282005895 TPR motif; other site 644282005896 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 644282005897 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 644282005898 binding surface 644282005899 TPR motif; other site 644282005900 TPR repeat; Region: TPR_11; pfam13414 644282005901 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 644282005902 TPR motif; other site 644282005903 TPR repeat; Region: TPR_11; pfam13414 644282005904 binding surface 644282005905 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 644282005906 binding surface 644282005907 TPR motif; other site 644282005908 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 644282005909 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 644282005910 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282005911 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 644282005912 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644282005913 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282005914 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 644282005915 MgtE intracellular N domain; Region: MgtE_N; cl15244 644282005916 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 644282005917 Divalent cation transporter; Region: MgtE; cl00786 644282005918 Recombination protein O N terminal; Region: RecO_N; cl15812 644282005919 DNA repair protein RecO; Region: reco; TIGR00613 644282005920 Recombination protein O C terminal; Region: RecO_C; pfam02565 644282005921 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282005922 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 644282005923 Domain of unknown function DUF59; Region: DUF59; cl00941 644282005924 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 644282005925 NifU-like domain; Region: NifU; cl00484 644282005926 AMP-binding domain protein; Validated; Region: PRK07529 644282005927 AMP-binding enzyme; Region: AMP-binding; cl15778 644282005928 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 644282005929 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 644282005930 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 644282005931 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 644282005932 Walker A motif; other site 644282005933 ATP binding site [chemical binding]; other site 644282005934 Walker B motif; other site 644282005935 arginine finger; other site 644282005936 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 644282005937 Sodium:solute symporter family; Region: SSF; cl00456 644282005938 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 644282005939 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 644282005940 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 644282005941 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 644282005942 Amidase; Region: Amidase; cl11426 644282005943 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 644282005944 CoenzymeA binding site [chemical binding]; other site 644282005945 subunit interaction site [polypeptide binding]; other site 644282005946 PHB binding site; other site 644282005947 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 644282005948 active site 644282005949 catalytic tetrad [active] 644282005950 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282005951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282005952 active site 644282005953 phosphorylation site [posttranslational modification] 644282005954 intermolecular recognition site; other site 644282005955 dimerization interface [polypeptide binding]; other site 644282005956 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 644282005957 Walker A motif; other site 644282005958 ATP binding site [chemical binding]; other site 644282005959 Walker B motif; other site 644282005960 arginine finger; other site 644282005961 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 644282005962 dimer interface [polypeptide binding]; other site 644282005963 phosphorylation site [posttranslational modification] 644282005964 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 644282005965 ATP binding site [chemical binding]; other site 644282005966 Mg2+ binding site [ion binding]; other site 644282005967 G-X-G motif; other site 644282005968 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 644282005969 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 644282005970 active site 644282005971 dimer interface [polypeptide binding]; other site 644282005972 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 644282005973 dimer interface [polypeptide binding]; other site 644282005974 active site 644282005975 recombination factor protein RarA; Reviewed; Region: PRK13342 644282005976 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 644282005977 Walker A motif; other site 644282005978 ATP binding site [chemical binding]; other site 644282005979 Walker B motif; other site 644282005980 arginine finger; other site 644282005981 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 644282005982 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 644282005983 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 644282005984 LysE type translocator; Region: LysE; cl00565 644282005985 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 644282005986 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 644282005987 oligomer interface [polypeptide binding]; other site 644282005988 putative active site [active] 644282005989 metal binding site [ion binding]; metal-binding site 644282005990 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 644282005991 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 644282005992 RNA binding surface [nucleotide binding]; other site 644282005993 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; cl15754 644282005994 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 644282005995 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 644282005996 TPP-binding site; other site 644282005997 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 644282005998 PYR/PP interface [polypeptide binding]; other site 644282005999 dimer interface [polypeptide binding]; other site 644282006000 TPP binding site [chemical binding]; other site 644282006001 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644282006002 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 644282006003 substrate binding pocket [chemical binding]; other site 644282006004 chain length determination region; other site 644282006005 substrate-Mg2+ binding site; other site 644282006006 catalytic residues [active] 644282006007 aspartate-rich region 1; other site 644282006008 active site lid residues [active] 644282006009 aspartate-rich region 2; other site 644282006010 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 644282006011 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282006012 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 644282006013 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 644282006014 generic binding surface II; other site 644282006015 generic binding surface I; other site 644282006016 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 644282006017 TRAM domain; Region: TRAM; cl01282 644282006018 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 644282006019 S-adenosylmethionine binding site [chemical binding]; other site 644282006020 HDOD domain; Region: HDOD; pfam08668 644282006021 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282006022 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 644282006023 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 644282006024 substrate binding site [chemical binding]; other site 644282006025 ATP binding site [chemical binding]; other site 644282006026 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 644282006027 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282006028 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 644282006029 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 644282006030 minor groove reading motif; other site 644282006031 helix-hairpin-helix signature motif; other site 644282006032 substrate binding pocket [chemical binding]; other site 644282006033 active site 644282006034 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 644282006035 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 644282006036 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 644282006037 substrate binding site [chemical binding]; other site 644282006038 Cache domain; Region: Cache_2; cl07034 644282006039 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 644282006040 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 644282006041 dimerization interface [polypeptide binding]; other site 644282006042 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282006043 dimer interface [polypeptide binding]; other site 644282006044 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 644282006045 putative CheW interface [polypeptide binding]; other site 644282006046 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 644282006047 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 644282006048 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282006049 Beta-Casp domain; Region: Beta-Casp; cl12567 644282006050 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 644282006051 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 644282006052 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 644282006053 FeS/SAM binding site; other site 644282006054 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 644282006055 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 644282006056 ribonuclease G; Provisional; Region: PRK11712 644282006057 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 644282006058 homodimer interface [polypeptide binding]; other site 644282006059 oligonucleotide binding site [chemical binding]; other site 644282006060 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282006061 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282006062 active site 644282006063 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282006064 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282006065 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282006066 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644282006067 Protein export membrane protein; Region: SecD_SecF; cl14618 644282006068 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 644282006069 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 644282006070 non-specific DNA binding site [nucleotide binding]; other site 644282006071 salt bridge; other site 644282006072 sequence-specific DNA binding site [nucleotide binding]; other site 644282006073 Cupin domain; Region: Cupin_2; cl09118 644282006074 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282006075 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 644282006076 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 644282006077 TPP-binding site [chemical binding]; other site 644282006078 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 644282006079 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 644282006080 dimer interface [polypeptide binding]; other site 644282006081 PYR/PP interface [polypeptide binding]; other site 644282006082 TPP binding site [chemical binding]; other site 644282006083 substrate binding site [chemical binding]; other site 644282006084 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282006085 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282006086 Acyl transferase domain; Region: Acyl_transf_1; cl08282 644282006087 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 644282006088 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 644282006089 Helix-turn-helix domains; Region: HTH; cl00088 644282006090 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 644282006091 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 644282006092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 644282006094 OstA-like protein; Region: OstA; cl00844 644282006095 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 644282006096 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 644282006097 Walker A/P-loop; other site 644282006098 ATP binding site [chemical binding]; other site 644282006099 Q-loop/lid; other site 644282006100 ABC transporter signature motif; other site 644282006101 Walker B; other site 644282006102 D-loop; other site 644282006103 H-loop/switch region; other site 644282006104 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 644282006105 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 644282006106 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 644282006107 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 644282006108 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 644282006109 30S subunit binding site; other site 644282006110 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 644282006111 active site 644282006112 phosphorylation site [posttranslational modification] 644282006113 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 644282006114 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 644282006115 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 644282006116 active pocket/dimerization site; other site 644282006117 active site 644282006118 phosphorylation site [posttranslational modification] 644282006119 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 644282006120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282006121 Coenzyme A binding pocket [chemical binding]; other site 644282006122 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 644282006123 Phosphoglycerate kinase; Region: PGK; pfam00162 644282006124 substrate binding site [chemical binding]; other site 644282006125 hinge regions; other site 644282006126 ADP binding site [chemical binding]; other site 644282006127 catalytic site [active] 644282006128 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 644282006129 substrate binding site [chemical binding]; other site 644282006130 dimer interface [polypeptide binding]; other site 644282006131 catalytic triad [active] 644282006132 Preprotein translocase SecG subunit; Region: SecG; cl09123 644282006133 short chain dehydrogenase; Provisional; Region: PRK07041 644282006134 classical (c) SDRs; Region: SDR_c; cd05233 644282006135 NAD(P) binding site [chemical binding]; other site 644282006136 active site 644282006137 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 644282006138 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 644282006139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006140 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 644282006141 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 644282006142 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 644282006143 P loop; other site 644282006144 GTP binding site [chemical binding]; other site 644282006145 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 644282006146 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 644282006147 Walker A/P-loop; other site 644282006148 ATP binding site [chemical binding]; other site 644282006149 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 644282006150 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 644282006151 ABC transporter signature motif; other site 644282006152 Walker B; other site 644282006153 D-loop; other site 644282006154 H-loop/switch region; other site 644282006155 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 644282006156 Protein of unknown function (DUF523); Region: DUF523; cl00733 644282006157 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 644282006158 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 644282006159 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 644282006160 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 644282006161 dimer interface [polypeptide binding]; other site 644282006162 motif 1; other site 644282006163 active site 644282006164 motif 2; other site 644282006165 motif 3; other site 644282006166 aspartate aminotransferase; Provisional; Region: PRK05764 644282006167 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 644282006168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282006169 homodimer interface [polypeptide binding]; other site 644282006170 catalytic residue [active] 644282006171 PilZ domain; Region: PilZ; cl01260 644282006172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006173 Ribulose 1,5-bisphosphate synthetase, converts PRPP to RuBP, flavoprotein [Carbohydrate transport and metabolism]; Region: THI4; COG1635 644282006174 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 644282006175 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 644282006176 TPR motif; other site 644282006177 binding surface 644282006178 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 644282006179 binding surface 644282006180 TPR motif; other site 644282006181 HDOD domain; Region: HDOD; pfam08668 644282006182 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 644282006183 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 644282006184 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 644282006185 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 644282006186 ATP binding site [chemical binding]; other site 644282006187 Walker A motif; other site 644282006188 hexamer interface [polypeptide binding]; other site 644282006189 Walker B motif; other site 644282006190 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 644282006191 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 644282006192 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282006193 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 644282006194 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 644282006195 BON domain; Region: BON; cl02771 644282006196 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 644282006197 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 644282006198 SAF domain; Region: SAF; cl00555 644282006199 TadE-like protein; Region: TadE; cl10688 644282006200 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282006201 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006202 active site 644282006203 phosphorylation site [posttranslational modification] 644282006204 intermolecular recognition site; other site 644282006205 dimerization interface [polypeptide binding]; other site 644282006206 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 644282006207 Walker A motif; other site 644282006208 ATP binding site [chemical binding]; other site 644282006209 Walker B motif; other site 644282006210 arginine finger; other site 644282006211 Helix-turn-helix domains; Region: HTH; cl00088 644282006212 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282006213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006214 active site 644282006215 phosphorylation site [posttranslational modification] 644282006216 intermolecular recognition site; other site 644282006217 dimerization interface [polypeptide binding]; other site 644282006218 PAS domain S-box; Region: sensory_box; TIGR00229 644282006219 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 644282006220 PAS domain S-box; Region: sensory_box; TIGR00229 644282006221 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 644282006222 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 644282006223 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 644282006224 dimer interface [polypeptide binding]; other site 644282006225 phosphorylation site [posttranslational modification] 644282006226 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 644282006227 ATP binding site [chemical binding]; other site 644282006228 Mg2+ binding site [ion binding]; other site 644282006229 G-X-G motif; other site 644282006230 Response regulator receiver domain; Region: Response_reg; pfam00072 644282006231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006232 active site 644282006233 phosphorylation site [posttranslational modification] 644282006234 intermolecular recognition site; other site 644282006235 dimerization interface [polypeptide binding]; other site 644282006236 CHASE4 domain; Region: CHASE4; cl01308 644282006237 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 644282006238 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 644282006239 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 644282006240 ATP binding site [chemical binding]; other site 644282006241 Mg2+ binding site [ion binding]; other site 644282006242 G-X-G motif; other site 644282006243 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 644282006244 CoenzymeA binding site [chemical binding]; other site 644282006245 subunit interaction site [polypeptide binding]; other site 644282006246 PHB binding site; other site 644282006247 enolase; Provisional; Region: eno; PRK00077 644282006248 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 644282006249 dimer interface [polypeptide binding]; other site 644282006250 metal binding site [ion binding]; metal-binding site 644282006251 substrate binding pocket [chemical binding]; other site 644282006252 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 644282006253 YcaO-like family; Region: YcaO; pfam02624 644282006254 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 644282006255 binding surface 644282006256 TPR motif; other site 644282006257 DsrC like protein; Region: DsrC; cl01101 644282006258 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 644282006259 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 644282006260 HIGH motif; other site 644282006261 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 644282006262 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 644282006263 active site 644282006264 KMSKS motif; other site 644282006265 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 644282006266 tRNA binding surface [nucleotide binding]; other site 644282006267 anticodon binding site; other site 644282006268 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 644282006269 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 644282006270 AP endonuclease family 2; Region: AP2Ec; smart00518 644282006271 AP (apurinic/apyrimidinic) site pocket; other site 644282006272 DNA interaction; other site 644282006273 Metal-binding active site; metal-binding site 644282006274 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 644282006275 metal-binding site [ion binding] 644282006276 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 644282006277 metal-binding site [ion binding] 644282006278 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 644282006279 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 644282006280 metal-binding site [ion binding] 644282006281 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 644282006282 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282006283 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 644282006284 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282006285 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 644282006286 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 644282006287 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 644282006288 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 644282006289 glutamate-1-semialdehyde 2,1-aminomutase; Region: PLN02482 644282006290 FlaG protein; Region: FlaG; cl00591 644282006291 Response regulator receiver domain; Region: Response_reg; pfam00072 644282006292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006293 active site 644282006294 phosphorylation site [posttranslational modification] 644282006295 intermolecular recognition site; other site 644282006296 dimerization interface [polypeptide binding]; other site 644282006297 GAF domain; Region: GAF_2; pfam13185 644282006298 GAF domain; Region: GAF; cl15785 644282006299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282006300 Zn2+ binding site [ion binding]; other site 644282006301 Mg2+ binding site [ion binding]; other site 644282006302 PilZ domain; Region: PilZ; cl01260 644282006303 sensory histidine kinase AtoS; Provisional; Region: PRK11360 644282006304 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 644282006305 ATP binding site [chemical binding]; other site 644282006306 G-X-G motif; other site 644282006307 HEAT repeats; Region: HEAT_2; pfam13646 644282006308 HEAT repeats; Region: HEAT_2; pfam13646 644282006309 HEAT repeats; Region: HEAT_2; pfam13646 644282006310 HEAT repeats; Region: HEAT_2; pfam13646 644282006311 HEAT repeats; Region: HEAT_2; pfam13646 644282006312 HEAT repeats; Region: HEAT_2; pfam13646 644282006313 HEAT repeats; Region: HEAT_2; pfam13646 644282006314 Response regulator receiver domain; Region: Response_reg; pfam00072 644282006315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006316 active site 644282006317 phosphorylation site [posttranslational modification] 644282006318 intermolecular recognition site; other site 644282006319 dimerization interface [polypeptide binding]; other site 644282006320 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282006321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006322 active site 644282006323 phosphorylation site [posttranslational modification] 644282006324 intermolecular recognition site; other site 644282006325 dimerization interface [polypeptide binding]; other site 644282006326 TPR repeat; Region: TPR_11; pfam13414 644282006327 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 644282006328 binding surface 644282006329 TPR motif; other site 644282006330 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282006331 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282006332 TPR repeat; Region: TPR_11; pfam13414 644282006333 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 644282006334 binding surface 644282006335 TPR motif; other site 644282006336 TPR repeat; Region: TPR_11; pfam13414 644282006337 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 644282006338 metal binding site 2 [ion binding]; metal-binding site 644282006339 putative DNA binding helix; other site 644282006340 metal binding site 1 [ion binding]; metal-binding site 644282006341 dimer interface [polypeptide binding]; other site 644282006342 structural Zn2+ binding site [ion binding]; other site 644282006343 FeoA domain; Region: FeoA; cl00838 644282006344 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 644282006345 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282006346 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 644282006347 Cysteine-rich domain; Region: CCG; pfam02754 644282006348 Cysteine-rich domain; Region: CCG; pfam02754 644282006349 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282006350 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 644282006351 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 644282006352 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 644282006353 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 644282006354 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 644282006355 active site 644282006356 HIGH motif; other site 644282006357 dimer interface [polypeptide binding]; other site 644282006358 KMSKS motif; other site 644282006359 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 644282006360 active site 644282006361 FMN binding site [chemical binding]; other site 644282006362 substrate binding site [chemical binding]; other site 644282006363 putative catalytic residue [active] 644282006364 ABC transporter ATPase component; Reviewed; Region: PRK11147 644282006365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282006366 Walker A/P-loop; other site 644282006367 ATP binding site [chemical binding]; other site 644282006368 Q-loop/lid; other site 644282006369 ABC transporter signature motif; other site 644282006370 Walker B; other site 644282006371 D-loop; other site 644282006372 H-loop/switch region; other site 644282006373 ABC transporter; Region: ABC_tran_2; pfam12848 644282006374 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 644282006375 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 644282006376 Mrr N-terminal domain; Region: Mrr_N; pfam14338 644282006377 Restriction endonuclease; Region: Mrr_cat; cl00516 644282006378 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 644282006379 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 644282006380 active site 644282006381 ThiC family; Region: ThiC; cl08031 644282006382 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282006383 active site 644282006384 ATP binding site [chemical binding]; other site 644282006385 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 644282006386 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 644282006387 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 644282006388 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 644282006389 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 644282006390 NlpC/P60 family; Region: NLPC_P60; cl11438 644282006391 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282006392 Smr domain; Region: Smr; cl02619 644282006393 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282006394 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 644282006395 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 644282006396 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 644282006397 P-loop; other site 644282006398 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282006399 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644282006400 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 644282006401 active site 644282006402 Helix-turn-helix domains; Region: HTH; cl00088 644282006403 Bacterial transcriptional repressor; Region: TetR; pfam13972 644282006404 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282006405 SCP-2 sterol transfer family; Region: SCP2; cl01225 644282006406 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 644282006407 Transcriptional regulators [Transcription]; Region: GntR; COG1802 644282006408 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 644282006409 DNA-binding site [nucleotide binding]; DNA binding site 644282006410 FCD domain; Region: FCD; cl11656 644282006411 HEAT repeats; Region: HEAT_2; pfam13646 644282006412 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 644282006413 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282006414 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282006415 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282006416 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 644282006417 Rubredoxin; Region: Rubredoxin; pfam00301 644282006418 iron binding site [ion binding]; other site 644282006419 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 644282006420 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 644282006421 non-heme iron binding site [ion binding]; other site 644282006422 dimer interface [polypeptide binding]; other site 644282006423 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 644282006424 non-heme iron binding site [ion binding]; other site 644282006425 dimer interface [polypeptide binding]; other site 644282006426 Rubrerythrin [Energy production and conversion]; Region: COG1592 644282006427 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 644282006428 binuclear metal center [ion binding]; other site 644282006429 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 644282006430 iron binding site [ion binding]; other site 644282006431 Helix-turn-helix domains; Region: HTH; cl00088 644282006432 non-specific DNA interactions [nucleotide binding]; other site 644282006433 DNA binding site [nucleotide binding] 644282006434 sequence specific DNA binding site [nucleotide binding]; other site 644282006435 putative cAMP binding site [chemical binding]; other site 644282006436 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 644282006437 metal binding site 2 [ion binding]; metal-binding site 644282006438 putative DNA binding helix; other site 644282006439 metal binding site 1 [ion binding]; metal-binding site 644282006440 dimer interface [polypeptide binding]; other site 644282006441 structural Zn2+ binding site [ion binding]; other site 644282006442 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 644282006443 Ligand Binding Site [chemical binding]; other site 644282006444 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282006445 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 644282006446 Walker A/P-loop; other site 644282006447 ATP binding site [chemical binding]; other site 644282006448 Q-loop/lid; other site 644282006449 ABC transporter signature motif; other site 644282006450 Walker B; other site 644282006451 D-loop; other site 644282006452 H-loop/switch region; other site 644282006453 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 644282006454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282006455 Walker A/P-loop; other site 644282006456 ATP binding site [chemical binding]; other site 644282006457 Q-loop/lid; other site 644282006458 ABC transporter signature motif; other site 644282006459 Walker B; other site 644282006460 D-loop; other site 644282006461 H-loop/switch region; other site 644282006462 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 644282006463 TM-ABC transporter signature motif; other site 644282006464 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 644282006465 TM-ABC transporter signature motif; other site 644282006466 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282006467 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 644282006468 putative ligand binding site [chemical binding]; other site 644282006469 tetratricopeptide repeat protein; Provisional; Region: PRK11788 644282006470 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 644282006471 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 644282006472 putative ligand binding site [chemical binding]; other site 644282006473 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 644282006474 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 644282006475 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 644282006476 dimer interface [polypeptide binding]; other site 644282006477 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 644282006478 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 644282006479 Helix-turn-helix domains; Region: HTH; cl00088 644282006480 HrcA protein C terminal domain; Region: HrcA; pfam01628 644282006481 CGGC domain; Region: CGGC; cl02356 644282006482 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 644282006483 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 644282006484 FeS/SAM binding site; other site 644282006485 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 644282006486 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 644282006487 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 644282006488 RNA/DNA binding site [nucleotide binding]; other site 644282006489 RRM dimerization site [polypeptide binding]; other site 644282006490 TIGR03084 family protein; Region: TIGR03084 644282006491 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 644282006492 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 644282006493 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 644282006494 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 644282006495 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 644282006496 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 644282006497 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 644282006498 catalytic site [active] 644282006499 G-X2-G-X-G-K; other site 644282006500 Domain of unknown function (DUF370); Region: DUF370; cl00898 644282006501 hypothetical protein; Provisional; Region: PRK11820 644282006502 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 644282006503 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 644282006504 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 644282006505 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 644282006506 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 644282006507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006508 O-Antigen ligase; Region: Wzy_C; cl04850 644282006509 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 644282006510 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 644282006511 putative ribose interaction site [chemical binding]; other site 644282006512 putative ADP binding site [chemical binding]; other site 644282006513 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006514 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 644282006515 putative active site [active] 644282006516 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282006517 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 644282006518 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 644282006519 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006520 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 644282006521 putative active site [active] 644282006522 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 644282006523 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006524 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 644282006525 putative active site [active] 644282006526 Trm112p-like protein; Region: Trm112p; cl01066 644282006527 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006528 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 644282006529 putative active site [active] 644282006530 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 644282006531 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 644282006532 active site 644282006533 motif I; other site 644282006534 motif II; other site 644282006535 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282006536 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 644282006537 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 644282006538 putative active site [active] 644282006539 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 644282006540 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 644282006541 putative acyl-acceptor binding pocket; other site 644282006542 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 644282006543 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 644282006544 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 644282006545 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 644282006546 putative active site [active] 644282006547 putative catalytic site [active] 644282006548 putative Zn binding site [ion binding]; other site 644282006549 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 644282006550 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 644282006551 Ligand binding site; other site 644282006552 Putative Catalytic site; other site 644282006553 DXD motif; other site 644282006554 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 644282006555 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 644282006556 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 644282006557 active site 644282006558 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 644282006559 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 644282006560 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 644282006561 Walker A/P-loop; other site 644282006562 ATP binding site [chemical binding]; other site 644282006563 Q-loop/lid; other site 644282006564 ABC transporter signature motif; other site 644282006565 Walker B; other site 644282006566 D-loop; other site 644282006567 H-loop/switch region; other site 644282006568 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 644282006569 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 644282006570 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 644282006571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006572 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 644282006573 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 644282006574 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 644282006575 active site 644282006576 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 644282006577 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 644282006578 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 644282006579 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 644282006580 trimer interface [polypeptide binding]; other site 644282006581 active site 644282006582 UDP-GlcNAc binding site [chemical binding]; other site 644282006583 lipid binding site [chemical binding]; lipid-binding site 644282006584 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 644282006585 TolB amino-terminal domain; Region: TolB_N; cl00639 644282006586 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 644282006587 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 644282006588 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 644282006589 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 644282006590 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 644282006591 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 644282006592 Surface antigen; Region: Bac_surface_Ag; cl03097 644282006593 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 644282006594 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 644282006595 Walker A/P-loop; other site 644282006596 ATP binding site [chemical binding]; other site 644282006597 Q-loop/lid; other site 644282006598 ABC transporter signature motif; other site 644282006599 Walker B; other site 644282006600 D-loop; other site 644282006601 H-loop/switch region; other site 644282006602 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 644282006603 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 644282006604 FtsX-like permease family; Region: FtsX; cl15850 644282006605 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 644282006606 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 644282006607 dimer interface [polypeptide binding]; other site 644282006608 putative anticodon binding site; other site 644282006609 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 644282006610 motif 1; other site 644282006611 active site 644282006612 motif 2; other site 644282006613 motif 3; other site 644282006614 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 644282006615 Cysteine-rich domain; Region: CCG; pfam02754 644282006616 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 644282006617 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 644282006618 Uncharacterized conserved protein [Function unknown]; Region: COG2006 644282006619 Domain of unknown function (DUF362); Region: DUF362; pfam04015 644282006620 4Fe-4S binding domain; Region: Fer4_5; pfam12801 644282006621 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 644282006622 4Fe-4S binding domain; Region: Fer4_5; pfam12801 644282006623 4Fe-4S binding domain; Region: Fer4; cl02805 644282006624 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 644282006625 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 644282006626 molybdopterin cofactor binding site; other site 644282006627 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 644282006628 molybdopterin cofactor binding site; other site 644282006629 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 644282006630 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 644282006631 catalytic loop [active] 644282006632 iron binding site [ion binding]; other site 644282006633 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 644282006634 4Fe-4S binding domain; Region: Fer4; cl02805 644282006635 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 644282006636 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 644282006637 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282006638 acetyl-CoA synthetase; Provisional; Region: PRK00174 644282006639 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 644282006640 AMP-binding enzyme; Region: AMP-binding; cl15778 644282006641 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282006642 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644282006643 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 644282006644 putative substrate translocation pore; other site 644282006645 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282006646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006647 active site 644282006648 phosphorylation site [posttranslational modification] 644282006649 intermolecular recognition site; other site 644282006650 dimerization interface [polypeptide binding]; other site 644282006651 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 644282006652 Walker A motif; other site 644282006653 ATP binding site [chemical binding]; other site 644282006654 Walker B motif; other site 644282006655 arginine finger; other site 644282006656 Helix-turn-helix domains; Region: HTH; cl00088 644282006657 Cache domain; Region: Cache_2; cl07034 644282006658 hypothetical protein; Provisional; Region: PRK13560 644282006659 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 644282006660 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 644282006661 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282006662 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 644282006663 dimer interface [polypeptide binding]; other site 644282006664 phosphorylation site [posttranslational modification] 644282006665 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 644282006666 ATP binding site [chemical binding]; other site 644282006667 Mg2+ binding site [ion binding]; other site 644282006668 G-X-G motif; other site 644282006669 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 644282006670 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644282006671 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 644282006672 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 644282006673 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 644282006674 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006675 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006677 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006678 4Fe-4S binding domain; Region: Fer4; cl02805 644282006679 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 644282006680 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 644282006681 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 644282006682 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282006683 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 644282006684 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 644282006685 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 644282006686 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 644282006687 FAD binding pocket [chemical binding]; other site 644282006688 FAD binding motif [chemical binding]; other site 644282006689 phosphate binding motif [ion binding]; other site 644282006690 beta-alpha-beta structure motif; other site 644282006691 NAD binding pocket [chemical binding]; other site 644282006692 Iron coordination center [ion binding]; other site 644282006693 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282006694 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282006695 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 644282006696 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 644282006697 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 644282006698 active site 644282006699 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282006700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006701 NAD(P) binding site [chemical binding]; other site 644282006702 active site 644282006703 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 644282006704 Malic enzyme, N-terminal domain; Region: malic; pfam00390 644282006705 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 644282006706 putative NAD(P) binding site [chemical binding]; other site 644282006707 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 644282006708 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 644282006709 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282006710 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 644282006711 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 644282006712 PilZ domain; Region: PilZ; cl01260 644282006713 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 644282006714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006715 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 644282006716 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 644282006717 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 644282006718 DNA binding residues [nucleotide binding] 644282006719 PilZ domain; Region: PilZ; cl01260 644282006720 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 644282006721 FAD binding site [chemical binding]; other site 644282006722 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006725 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006726 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006727 4Fe-4S binding domain; Region: Fer4; cl02805 644282006728 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 644282006729 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 644282006730 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 644282006731 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 644282006732 FAD binding site [chemical binding]; other site 644282006733 Response regulator receiver domain; Region: Response_reg; pfam00072 644282006734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006735 active site 644282006736 phosphorylation site [posttranslational modification] 644282006737 intermolecular recognition site; other site 644282006738 dimerization interface [polypeptide binding]; other site 644282006739 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 644282006740 PAS domain; Region: PAS_9; pfam13426 644282006741 putative active site [active] 644282006742 heme pocket [chemical binding]; other site 644282006743 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 644282006744 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 644282006745 dimer interface [polypeptide binding]; other site 644282006746 phosphorylation site [posttranslational modification] 644282006747 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 644282006748 ATP binding site [chemical binding]; other site 644282006749 Mg2+ binding site [ion binding]; other site 644282006750 G-X-G motif; other site 644282006751 Response regulator receiver domain; Region: Response_reg; pfam00072 644282006752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006753 active site 644282006754 phosphorylation site [posttranslational modification] 644282006755 intermolecular recognition site; other site 644282006756 dimerization interface [polypeptide binding]; other site 644282006757 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 644282006758 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 644282006759 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 644282006760 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 644282006761 ATP binding site [chemical binding]; other site 644282006762 Mg2+ binding site [ion binding]; other site 644282006763 G-X-G motif; other site 644282006764 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 644282006765 TPP-binding site [chemical binding]; other site 644282006766 dimer interface [polypeptide binding]; other site 644282006767 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 644282006768 PYR/PP interface [polypeptide binding]; other site 644282006769 dimer interface [polypeptide binding]; other site 644282006770 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 644282006771 TPP binding site [chemical binding]; other site 644282006772 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 644282006773 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 644282006774 Ligand binding site; other site 644282006775 Putative Catalytic site; other site 644282006776 DXD motif; other site 644282006777 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 644282006778 S-adenosylmethionine binding site [chemical binding]; other site 644282006779 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282006780 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 644282006781 S-adenosylmethionine binding site [chemical binding]; other site 644282006782 Methyltransferase domain; Region: Methyltransf_31; pfam13847 644282006783 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 644282006784 S-adenosylmethionine binding site [chemical binding]; other site 644282006785 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 644282006786 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 644282006787 S-adenosylmethionine binding site [chemical binding]; other site 644282006788 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 644282006789 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 644282006790 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 644282006791 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282006792 catalytic residue [active] 644282006793 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 644282006794 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 644282006795 inhibitor-cofactor binding pocket; inhibition site 644282006796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282006797 catalytic residue [active] 644282006798 WbqC-like protein family; Region: WbqC; pfam08889 644282006799 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 644282006800 active site 644282006801 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 644282006802 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 644282006803 P loop nucleotide binding; other site 644282006804 switch II; other site 644282006805 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 644282006806 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282006807 switch II; other site 644282006808 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 644282006809 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 644282006810 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 644282006811 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 644282006812 PAS domain; Region: PAS_9; pfam13426 644282006813 putative active site [active] 644282006814 heme pocket [chemical binding]; other site 644282006815 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 644282006816 Walker A motif; other site 644282006817 ATP binding site [chemical binding]; other site 644282006818 Walker B motif; other site 644282006819 arginine finger; other site 644282006820 Helix-turn-helix domains; Region: HTH; cl00088 644282006821 Helix-turn-helix domains; Region: HTH; cl00088 644282006822 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 644282006823 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282006824 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282006825 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282006826 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644282006827 FtsH Extracellular; Region: FtsH_ext; pfam06480 644282006828 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 644282006829 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 644282006830 Walker A motif; other site 644282006831 ATP binding site [chemical binding]; other site 644282006832 Walker B motif; other site 644282006833 arginine finger; other site 644282006834 Peptidase family M41; Region: Peptidase_M41; pfam01434 644282006835 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 644282006836 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 644282006837 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 644282006838 Family description; Region: UvrD_C_2; cl15862 644282006839 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282006840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282006841 active site 644282006842 phosphorylation site [posttranslational modification] 644282006843 intermolecular recognition site; other site 644282006844 dimerization interface [polypeptide binding]; other site 644282006845 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 644282006846 Walker A motif; other site 644282006847 ATP binding site [chemical binding]; other site 644282006848 Walker B motif; other site 644282006849 Helix-turn-helix domains; Region: HTH; cl00088 644282006850 rod shape-determining protein MreB; Provisional; Region: PRK13930 644282006851 Cell division protein FtsA; Region: FtsA; cl11496 644282006852 AAA domain; Region: AAA_32; pfam13654 644282006853 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 644282006854 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 644282006855 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 644282006856 aconitate hydratase; Validated; Region: PRK07229 644282006857 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 644282006858 substrate binding site [chemical binding]; other site 644282006859 ligand binding site [chemical binding]; other site 644282006860 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 644282006861 substrate binding site [chemical binding]; other site 644282006862 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 644282006863 putative metal binding site; other site 644282006864 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 644282006865 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 644282006866 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 644282006867 FeS/SAM binding site; other site 644282006868 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 644282006869 active site 644282006870 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 644282006871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006872 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282006873 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282006874 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282006875 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 644282006876 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282006877 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282006878 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 644282006879 active site residue [active] 644282006880 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 644282006881 active site 644282006882 Maf-like protein; Region: Maf; pfam02545 644282006883 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 644282006884 active site 644282006885 dimer interface [polypeptide binding]; other site 644282006886 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 644282006887 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644282006888 catalytic residue [active] 644282006889 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 644282006890 S-adenosylmethionine binding site [chemical binding]; other site 644282006891 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 644282006892 elongation factor P; Validated; Region: PRK00529 644282006893 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 644282006894 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 644282006895 RNA binding site [nucleotide binding]; other site 644282006896 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 644282006897 RNA binding site [nucleotide binding]; other site 644282006898 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 644282006899 binding surface 644282006900 TPR motif; other site 644282006901 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 644282006902 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 644282006903 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 644282006904 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282006905 FeS/SAM binding site; other site 644282006906 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 644282006907 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 644282006908 active site 644282006909 motif I; other site 644282006910 motif II; other site 644282006911 Polysulphide reductase, NrfD; Region: NrfD; cl01295 644282006912 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 644282006913 4Fe-4S binding domain; Region: Fer4; cl02805 644282006914 4Fe-4S binding domain; Region: Fer4; cl02805 644282006915 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 644282006916 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 644282006917 molybdopterin cofactor binding site; other site 644282006918 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 644282006919 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 644282006920 heme-binding residues [chemical binding]; other site 644282006921 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 644282006922 nudix motif; other site 644282006923 Cupin domain; Region: Cupin_2; cl09118 644282006924 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 644282006925 S-adenosylmethionine binding site [chemical binding]; other site 644282006926 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 644282006927 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 644282006928 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 644282006929 FAD binding site [chemical binding]; other site 644282006930 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 644282006931 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006932 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 644282006933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006934 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006936 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006937 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 644282006938 4Fe-4S binding domain; Region: Fer4; cl02805 644282006939 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 644282006940 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 644282006941 Potassium binding sites [ion binding]; other site 644282006942 Cesium cation binding sites [ion binding]; other site 644282006943 ferredoxin; Validated; Region: PRK07118 644282006944 4Fe-4S binding domain; Region: Fer4; cl02805 644282006945 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 644282006946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282006947 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 644282006948 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 644282006949 RF-1 domain; Region: RF-1; cl02875 644282006950 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282006951 dimer interface [polypeptide binding]; other site 644282006952 putative CheW interface [polypeptide binding]; other site 644282006953 4Fe-4S binding domain; Region: Fer4; cl02805 644282006954 Ferredoxin [Energy production and conversion]; Region: COG1146 644282006955 4Fe-4S binding domain; Region: Fer4; cl02805 644282006956 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 644282006957 anti sigma factor interaction site; other site 644282006958 regulatory phosphorylation site [posttranslational modification]; other site 644282006959 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 644282006960 active site 644282006961 zinc binding site [ion binding]; other site 644282006962 Na+ binding site [ion binding]; other site 644282006963 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644282006964 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644282006965 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282006966 metal binding site [ion binding]; metal-binding site 644282006967 active site 644282006968 I-site; other site 644282006969 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 644282006970 Int/Topo IB signature motif; other site 644282006971 Phage-related protein [Function unknown]; Region: COG4695; cl01923 644282006972 Phage portal protein; Region: Phage_portal; pfam04860 644282006973 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 644282006974 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282006975 Phage capsid family; Region: Phage_capsid; pfam05065 644282006976 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 644282006977 Phage Terminase; Region: Terminase_1; pfam03354 644282006978 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 644282006979 active site 644282006980 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 644282006981 polymerase nucleotide-binding site; other site 644282006982 DNA-binding residues [nucleotide binding]; DNA binding site 644282006983 nucleotide binding site [chemical binding]; other site 644282006984 primase nucleotide-binding site [nucleotide binding]; other site 644282006985 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282006986 Walker A motif; other site 644282006987 ATP binding site [chemical binding]; other site 644282006988 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282006989 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282006990 Helix-turn-helix domains; Region: HTH; cl00088 644282006991 Integrase core domain; Region: rve; cl01316 644282006992 Integrase core domain; Region: rve_3; cl15866 644282006993 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644282006994 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282006995 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 644282006996 N-terminal plug; other site 644282006997 ligand-binding site [chemical binding]; other site 644282006998 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644282006999 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 644282007000 Cache domain; Region: Cache_2; cl07034 644282007001 PAS domain S-box; Region: sensory_box; TIGR00229 644282007002 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 644282007003 putative active site [active] 644282007004 heme pocket [chemical binding]; other site 644282007005 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282007006 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 644282007007 putative active site [active] 644282007008 heme pocket [chemical binding]; other site 644282007009 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 644282007010 dimer interface [polypeptide binding]; other site 644282007011 phosphorylation site [posttranslational modification] 644282007012 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 644282007013 ATP binding site [chemical binding]; other site 644282007014 Mg2+ binding site [ion binding]; other site 644282007015 G-X-G motif; other site 644282007016 Response regulator receiver domain; Region: Response_reg; pfam00072 644282007017 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007018 active site 644282007019 phosphorylation site [posttranslational modification] 644282007020 intermolecular recognition site; other site 644282007021 dimerization interface [polypeptide binding]; other site 644282007022 sensory histidine kinase AtoS; Provisional; Region: PRK11360 644282007023 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 644282007024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282007025 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 644282007026 dimer interface [polypeptide binding]; other site 644282007027 phosphorylation site [posttranslational modification] 644282007028 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 644282007029 ATP binding site [chemical binding]; other site 644282007030 Mg2+ binding site [ion binding]; other site 644282007031 G-X-G motif; other site 644282007032 Response regulator receiver domain; Region: Response_reg; pfam00072 644282007033 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007034 active site 644282007035 phosphorylation site [posttranslational modification] 644282007036 intermolecular recognition site; other site 644282007037 dimerization interface [polypeptide binding]; other site 644282007038 Cache domain; Region: Cache_1; pfam02743 644282007039 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282007040 dimer interface [polypeptide binding]; other site 644282007041 putative CheW interface [polypeptide binding]; other site 644282007042 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 644282007043 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 644282007044 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 644282007045 putative active site [active] 644282007046 heme pocket [chemical binding]; other site 644282007047 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 644282007048 putative active site [active] 644282007049 heme pocket [chemical binding]; other site 644282007050 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 644282007051 putative active site [active] 644282007052 heme pocket [chemical binding]; other site 644282007053 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282007054 metal binding site [ion binding]; metal-binding site 644282007055 active site 644282007056 I-site; other site 644282007057 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 644282007058 glycerol kinase; Provisional; Region: glpK; PRK00047 644282007059 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 644282007060 N- and C-terminal domain interface [polypeptide binding]; other site 644282007061 active site 644282007062 MgATP binding site [chemical binding]; other site 644282007063 catalytic site [active] 644282007064 metal binding site [ion binding]; metal-binding site 644282007065 carbohydrate binding site [chemical binding]; other site 644282007066 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 644282007067 PAS fold; Region: PAS; pfam00989 644282007068 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 644282007069 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 644282007070 FMN binding site [chemical binding]; other site 644282007071 substrate binding site [chemical binding]; other site 644282007072 putative catalytic residue [active] 644282007073 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 644282007074 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 644282007075 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282007076 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 644282007077 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 644282007078 Predicted permeases [General function prediction only]; Region: COG0701 644282007079 Predicted permease; Region: DUF318; pfam03773 644282007080 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 644282007081 dimerization interface [polypeptide binding]; other site 644282007082 putative DNA binding site [nucleotide binding]; other site 644282007083 putative Zn2+ binding site [ion binding]; other site 644282007084 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 644282007085 dimerization interface [polypeptide binding]; other site 644282007086 putative DNA binding site [nucleotide binding]; other site 644282007087 putative Zn2+ binding site [ion binding]; other site 644282007088 Predicted permeases [General function prediction only]; Region: COG0701 644282007089 Predicted permease; Region: DUF318; pfam03773 644282007090 DsrE/DsrF-like family; Region: DrsE; cl00672 644282007091 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 644282007092 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 644282007093 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 644282007094 FeS/SAM binding site; other site 644282007095 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 644282007096 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 644282007097 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 644282007098 Catalytic site [active] 644282007099 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 644282007100 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 644282007101 catalytic loop [active] 644282007102 iron binding site [ion binding]; other site 644282007103 Membrane protein of unknown function; Region: DUF360; cl00850 644282007104 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282007105 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 644282007106 putative phosphate binding site [ion binding]; other site 644282007107 putative catalytic site [active] 644282007108 active site 644282007109 metal binding site A [ion binding]; metal-binding site 644282007110 DNA binding site [nucleotide binding] 644282007111 putative AP binding site [nucleotide binding]; other site 644282007112 putative metal binding site B [ion binding]; other site 644282007113 GAF domain; Region: GAF_2; pfam13185 644282007114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282007115 metal binding site [ion binding]; metal-binding site 644282007116 active site 644282007117 I-site; other site 644282007118 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 644282007119 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 644282007120 NAD binding site [chemical binding]; other site 644282007121 substrate binding site [chemical binding]; other site 644282007122 homodimer interface [polypeptide binding]; other site 644282007123 active site 644282007124 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 644282007125 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 644282007126 NADP binding site [chemical binding]; other site 644282007127 active site 644282007128 putative substrate binding site [chemical binding]; other site 644282007129 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 644282007130 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 644282007131 substrate binding site; other site 644282007132 tetramer interface; other site 644282007133 Cupin domain; Region: Cupin_2; cl09118 644282007134 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282007135 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 644282007136 TPR motif; other site 644282007137 binding surface 644282007138 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 644282007139 binding surface 644282007140 TPR motif; other site 644282007141 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 644282007142 binding surface 644282007143 TPR motif; other site 644282007144 Gram-negative bacterial tonB protein; Region: TonB; cl10048 644282007145 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 644282007146 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282007147 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 644282007148 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282007149 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 644282007150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 644282007151 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 644282007152 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 644282007153 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 644282007154 S-adenosylmethionine binding site [chemical binding]; other site 644282007155 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 644282007156 AIR carboxylase; Region: AIRC; cl00310 644282007157 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 644282007158 putative active site [active] 644282007159 dimerization interface [polypeptide binding]; other site 644282007160 putative tRNAtyr binding site [nucleotide binding]; other site 644282007161 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 644282007162 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 644282007163 dimerization interface [polypeptide binding]; other site 644282007164 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 644282007165 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 644282007166 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 644282007167 PhoU domain; Region: PhoU; pfam01895 644282007168 PhoU domain; Region: PhoU; pfam01895 644282007169 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 644282007170 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 644282007171 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 644282007172 FlgD Ig-like domain; Region: FlgD_ig; cl15790 644282007173 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 644282007174 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 644282007175 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 644282007176 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282007177 flagellar motor protein MotP; Reviewed; Region: PRK06926 644282007178 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 644282007179 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282007180 ligand binding site [chemical binding]; other site 644282007181 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282007182 ligand binding site [chemical binding]; other site 644282007183 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 644282007184 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 644282007185 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 644282007186 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 644282007187 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 644282007188 FliP family; Region: FliP; cl00593 644282007189 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 644282007190 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 644282007191 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 644282007192 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 644282007193 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 644282007194 FHIPEP family; Region: FHIPEP; pfam00771 644282007195 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 644282007196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007197 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 644282007198 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 644282007199 P-loop; other site 644282007200 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 644282007201 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 644282007202 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282007203 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644282007204 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 644282007205 DNA binding residues [nucleotide binding] 644282007206 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 644282007207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282007208 active site 644282007209 phosphorylation site [posttranslational modification] 644282007210 intermolecular recognition site; other site 644282007211 dimerization interface [polypeptide binding]; other site 644282007212 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 644282007213 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 644282007214 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 644282007215 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 644282007216 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 644282007217 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 644282007218 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 644282007219 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 644282007220 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 644282007221 SAF domain; Region: SAF; cl00555 644282007222 Flagellar L-ring protein; Region: FlgH; cl00905 644282007223 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 644282007224 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 644282007225 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 644282007226 Rod binding protein; Region: Rod-binding; cl01626 644282007227 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282007228 FlgN protein; Region: FlgN; cl09176 644282007229 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 644282007230 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 644282007231 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 644282007232 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 644282007233 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 644282007234 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 644282007235 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 644282007236 Global regulator protein family; Region: CsrA; cl00670 644282007237 FliW protein; Region: FliW; cl00740 644282007238 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 644282007239 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 644282007240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 644282007241 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 644282007242 active site 644282007243 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 644282007244 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 644282007245 binding surface 644282007246 TPR motif; other site 644282007247 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 644282007248 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 644282007249 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 644282007250 putative active site [active] 644282007251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 644282007252 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 644282007253 Flagellar protein FliS; Region: FliS; cl00654 644282007254 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 644282007255 flagellar capping protein; Provisional; Region: PRK12765 644282007256 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 644282007257 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 644282007258 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 644282007259 putative metal binding site; other site 644282007260 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 644282007261 TPR motif; other site 644282007262 binding surface 644282007263 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 644282007264 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644282007265 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644282007266 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644282007267 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644282007268 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644282007269 flagellin; Provisional; Region: PRK12806 644282007270 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 644282007271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282007272 metal binding site [ion binding]; metal-binding site 644282007273 active site 644282007274 I-site; other site 644282007275 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 644282007276 CrcB-like protein; Region: CRCB; cl09114 644282007277 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 644282007278 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 644282007279 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 644282007280 dimer interface [polypeptide binding]; other site 644282007281 PYR/PP interface [polypeptide binding]; other site 644282007282 TPP binding site [chemical binding]; other site 644282007283 substrate binding site [chemical binding]; other site 644282007284 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644282007285 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 644282007286 TPP-binding site [chemical binding]; other site 644282007287 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 644282007288 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282007289 ACT domain-containing protein [General function prediction only]; Region: COG4747 644282007290 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282007291 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282007292 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 644282007293 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282007294 putative ligand binding site [chemical binding]; other site 644282007295 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 644282007296 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 644282007297 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 644282007298 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 644282007299 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 644282007300 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 644282007301 active site 644282007302 GMP synthase; Reviewed; Region: guaA; PRK00074 644282007303 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 644282007304 AMP/PPi binding site [chemical binding]; other site 644282007305 candidate oxyanion hole; other site 644282007306 catalytic triad [active] 644282007307 potential glutamine specificity residues [chemical binding]; other site 644282007308 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 644282007309 ATP Binding subdomain [chemical binding]; other site 644282007310 Ligand Binding sites [chemical binding]; other site 644282007311 Dimerization subdomain; other site 644282007312 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 644282007313 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 644282007314 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 644282007315 generic binding surface II; other site 644282007316 generic binding surface I; other site 644282007317 NMT1-like family; Region: NMT1_2; cl15260 644282007318 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 644282007319 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 644282007320 Helix-turn-helix domains; Region: HTH; cl00088 644282007321 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 644282007322 putative RNA binding site [nucleotide binding]; other site 644282007323 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 644282007324 homopentamer interface [polypeptide binding]; other site 644282007325 active site 644282007326 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 644282007327 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 644282007328 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 644282007329 dimerization interface [polypeptide binding]; other site 644282007330 active site 644282007331 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282007332 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 644282007333 Lumazine binding domain; Region: Lum_binding; pfam00677 644282007334 Lumazine binding domain; Region: Lum_binding; pfam00677 644282007335 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 644282007336 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 644282007337 catalytic motif [active] 644282007338 Zn binding site [ion binding]; other site 644282007339 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 644282007340 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 644282007341 ATP cone domain; Region: ATP-cone; pfam03477 644282007342 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 644282007343 active site 644282007344 Zn binding site [ion binding]; other site 644282007345 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 644282007346 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 644282007347 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 644282007348 dimer interface [polypeptide binding]; other site 644282007349 active site 644282007350 Phosphopantetheine attachment site; Region: PP-binding; cl09936 644282007351 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 644282007352 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 644282007353 NAD(P) binding site [chemical binding]; other site 644282007354 homotetramer interface [polypeptide binding]; other site 644282007355 homodimer interface [polypeptide binding]; other site 644282007356 active site 644282007357 Ferredoxin [Energy production and conversion]; Region: COG1146 644282007358 4Fe-4S binding domain; Region: Fer4; cl02805 644282007359 4Fe-4S binding domain; Region: Fer4; cl02805 644282007360 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 644282007361 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 644282007362 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 644282007363 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 644282007364 Ligand binding site [chemical binding]; other site 644282007365 Electron transfer flavoprotein domain; Region: ETF; pfam01012 644282007366 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282007367 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282007368 active site 644282007369 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 644282007370 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 644282007371 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 644282007372 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 644282007373 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 644282007374 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 644282007375 muropeptide transporter; Validated; Region: ampG; PRK11010 644282007376 muropeptide transporter; Reviewed; Region: ampG; PRK11902 644282007377 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 644282007378 HflK protein; Region: hflK; TIGR01933 644282007379 HflC protein; Region: hflC; TIGR01932 644282007380 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 644282007381 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 644282007382 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 644282007383 GTPase CgtA; Reviewed; Region: obgE; PRK12299 644282007384 GTP1/OBG; Region: GTP1_OBG; pfam01018 644282007385 Obg GTPase; Region: Obg; cd01898 644282007386 G1 box; other site 644282007387 GTP/Mg2+ binding site [chemical binding]; other site 644282007388 Switch I region; other site 644282007389 G2 box; other site 644282007390 G3 box; other site 644282007391 Switch II region; other site 644282007392 G4 box; other site 644282007393 G5 box; other site 644282007394 gamma-glutamyl kinase; Provisional; Region: PRK05429 644282007395 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 644282007396 nucleotide binding site [chemical binding]; other site 644282007397 homotetrameric interface [polypeptide binding]; other site 644282007398 putative phosphate binding site [ion binding]; other site 644282007399 putative allosteric binding site; other site 644282007400 PUA domain; Region: PUA; cl00607 644282007401 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 644282007402 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 644282007403 putative catalytic cysteine [active] 644282007404 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 644282007405 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 644282007406 active site 644282007407 (T/H)XGH motif; other site 644282007408 Oligomerisation domain; Region: Oligomerisation; cl00519 644282007409 Sulfatase; Region: Sulfatase; cl10460 644282007410 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 644282007411 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 644282007412 Peptidase family M48; Region: Peptidase_M48; cl12018 644282007413 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 644282007414 binding surface 644282007415 TPR motif; other site 644282007416 elongation factor G; Reviewed; Region: PRK00007 644282007417 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 644282007418 G1 box; other site 644282007419 putative GEF interaction site [polypeptide binding]; other site 644282007420 GTP/Mg2+ binding site [chemical binding]; other site 644282007421 Switch I region; other site 644282007422 G2 box; other site 644282007423 G3 box; other site 644282007424 Switch II region; other site 644282007425 G4 box; other site 644282007426 G5 box; other site 644282007427 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 644282007428 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 644282007429 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 644282007430 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 644282007431 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 644282007432 minor groove reading motif; other site 644282007433 helix-hairpin-helix signature motif; other site 644282007434 substrate binding pocket [chemical binding]; other site 644282007435 active site 644282007436 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282007437 putative peptidoglycan binding site; other site 644282007438 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 644282007439 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 644282007440 recombination protein RecR; Reviewed; Region: recR; PRK00076 644282007441 RecR protein; Region: RecR; pfam02132 644282007442 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 644282007443 putative active site [active] 644282007444 putative metal-binding site [ion binding]; other site 644282007445 tetramer interface [polypeptide binding]; other site 644282007446 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 644282007447 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 644282007448 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 644282007449 Walker A motif; other site 644282007450 ATP binding site [chemical binding]; other site 644282007451 Walker B motif; other site 644282007452 arginine finger; other site 644282007453 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 644282007454 Domain of unknown function DUF77; Region: DUF77; cl00307 644282007455 Peptidase family M48; Region: Peptidase_M48; cl12018 644282007456 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 644282007457 TPR motif; other site 644282007458 binding surface 644282007459 Tetratricopeptide repeat; Region: TPR_6; pfam13174 644282007460 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 644282007461 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 644282007462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007463 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 644282007464 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 644282007465 putative trimer interface [polypeptide binding]; other site 644282007466 putative active site [active] 644282007467 putative substrate binding site [chemical binding]; other site 644282007468 putative CoA binding site [chemical binding]; other site 644282007469 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 644282007470 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 644282007471 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 644282007472 putative active site [active] 644282007473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007474 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 644282007475 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 644282007476 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 644282007477 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 644282007478 binding surface 644282007479 TPR motif; other site 644282007480 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 644282007481 ligand binding site [chemical binding]; other site 644282007482 Gram-negative bacterial tonB protein; Region: TonB; cl10048 644282007483 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 644282007484 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 644282007485 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 644282007486 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282007487 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 644282007488 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282007489 catalytic residue [active] 644282007490 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 644282007491 putative peptidoglycan binding site; other site 644282007492 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 644282007493 dimerization interface [polypeptide binding]; other site 644282007494 ATP binding site [chemical binding]; other site 644282007495 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 644282007496 active site 644282007497 multimer interface [polypeptide binding]; other site 644282007498 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 644282007499 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 644282007500 cobalamin binding residues [chemical binding]; other site 644282007501 putative BtuC binding residues; other site 644282007502 dimer interface [polypeptide binding]; other site 644282007503 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 644282007504 ABC-ATPase subunit interface; other site 644282007505 dimer interface [polypeptide binding]; other site 644282007506 putative PBP binding regions; other site 644282007507 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 644282007508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007509 Walker A/P-loop; other site 644282007510 ATP binding site [chemical binding]; other site 644282007511 Q-loop/lid; other site 644282007512 ABC transporter signature motif; other site 644282007513 Walker B; other site 644282007514 D-loop; other site 644282007515 H-loop/switch region; other site 644282007516 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 644282007517 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282007518 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282007519 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282007520 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 644282007521 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 644282007522 Amidase; Region: Amidase; cl11426 644282007523 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282007524 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 644282007525 substrate binding site [chemical binding]; other site 644282007526 oxyanion hole (OAH) forming residues; other site 644282007527 trimer interface [polypeptide binding]; other site 644282007528 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 644282007529 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 644282007530 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282007531 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282007532 active site 644282007533 enoyl-CoA hydratase; Provisional; Region: PRK07658 644282007534 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 644282007535 substrate binding site [chemical binding]; other site 644282007536 oxyanion hole (OAH) forming residues; other site 644282007537 trimer interface [polypeptide binding]; other site 644282007538 putative acyltransferase; Provisional; Region: PRK05790 644282007539 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 644282007540 dimer interface [polypeptide binding]; other site 644282007541 active site 644282007542 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 644282007543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007544 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 644282007545 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282007546 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282007547 active site 644282007548 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 644282007549 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 644282007550 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 644282007551 Walker A motif; other site 644282007552 ATP binding site [chemical binding]; other site 644282007553 Walker B motif; other site 644282007554 arginine finger; other site 644282007555 Helix-turn-helix domains; Region: HTH; cl00088 644282007556 Helix-turn-helix domains; Region: HTH; cl00088 644282007557 Predicted permeases [General function prediction only]; Region: COG0701 644282007558 Predicted permease; Region: DUF318; pfam03773 644282007559 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 644282007560 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007561 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 644282007562 catalytic triad [active] 644282007563 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 644282007564 Precorrin-8X methylmutase; Region: CbiC; pfam02570 644282007565 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282007566 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 644282007567 CbiD; Region: CbiD; cl00828 644282007568 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 644282007569 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282007570 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; cl15754 644282007571 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282007572 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 644282007573 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 644282007574 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 644282007575 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 644282007576 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 644282007577 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282007578 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 644282007579 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 644282007580 active site 644282007581 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 644282007582 active site 644282007583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007584 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 644282007585 Walker A/P-loop; other site 644282007586 ATP binding site [chemical binding]; other site 644282007587 Q-loop/lid; other site 644282007588 ABC transporter signature motif; other site 644282007589 Walker B; other site 644282007590 D-loop; other site 644282007591 H-loop/switch region; other site 644282007592 ABC-2 type transporter; Region: ABC2_membrane; cl11417 644282007593 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 644282007594 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 644282007595 N-terminal plug; other site 644282007596 ligand-binding site [chemical binding]; other site 644282007597 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282007598 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 644282007599 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282007600 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 644282007601 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 644282007602 intersubunit interface [polypeptide binding]; other site 644282007603 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 644282007604 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 644282007605 ABC-ATPase subunit interface; other site 644282007606 dimer interface [polypeptide binding]; other site 644282007607 putative PBP binding regions; other site 644282007608 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 644282007609 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 644282007610 Walker A/P-loop; other site 644282007611 ATP binding site [chemical binding]; other site 644282007612 Q-loop/lid; other site 644282007613 ABC transporter signature motif; other site 644282007614 Walker B; other site 644282007615 D-loop; other site 644282007616 H-loop/switch region; other site 644282007617 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 644282007618 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 644282007619 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 644282007620 N-terminal plug; other site 644282007621 ligand-binding site [chemical binding]; other site 644282007622 Alkaline phosphatase homologues; Region: alkPPc; smart00098 644282007623 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 644282007624 active site 644282007625 dimer interface [polypeptide binding]; other site 644282007626 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 644282007627 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 644282007628 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007629 Walker A/P-loop; other site 644282007630 ATP binding site [chemical binding]; other site 644282007631 Q-loop/lid; other site 644282007632 ABC transporter signature motif; other site 644282007633 Walker B; other site 644282007634 D-loop; other site 644282007635 H-loop/switch region; other site 644282007636 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 644282007637 TM-ABC transporter signature motif; other site 644282007638 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 644282007639 zinc binding site [ion binding]; other site 644282007640 putative ligand binding site [chemical binding]; other site 644282007641 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 644282007642 zinc binding site [ion binding]; other site 644282007643 putative ligand binding site [chemical binding]; other site 644282007644 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 644282007645 anti sigma factor interaction site; other site 644282007646 regulatory phosphorylation site [posttranslational modification]; other site 644282007647 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 644282007648 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 644282007649 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644282007650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007651 Walker A/P-loop; other site 644282007652 ATP binding site [chemical binding]; other site 644282007653 Q-loop/lid; other site 644282007654 ABC transporter signature motif; other site 644282007655 Walker B; other site 644282007656 D-loop; other site 644282007657 H-loop/switch region; other site 644282007658 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644282007659 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 644282007660 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 644282007661 Walker A/P-loop; other site 644282007662 ATP binding site [chemical binding]; other site 644282007663 Q-loop/lid; other site 644282007664 ABC transporter signature motif; other site 644282007665 Walker B; other site 644282007666 D-loop; other site 644282007667 H-loop/switch region; other site 644282007668 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 644282007669 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 644282007670 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 644282007671 Walker A motif; other site 644282007672 ATP binding site [chemical binding]; other site 644282007673 Walker B motif; other site 644282007674 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 644282007675 Helix-turn-helix domain; Region: HTH_18; pfam12833 644282007676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 644282007677 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282007678 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 644282007679 N-terminal plug; other site 644282007680 ligand-binding site [chemical binding]; other site 644282007681 Phospholipid methyltransferase; Region: PEMT; cl00763 644282007682 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 644282007683 (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 644282007684 active site 644282007685 catalytic site [active] 644282007686 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 644282007687 active site 2 [active] 644282007688 active site 1 [active] 644282007689 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 644282007690 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282007691 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 644282007692 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 644282007693 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 644282007694 FeS/SAM binding site; other site 644282007695 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 644282007696 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 644282007697 B12 binding site [chemical binding]; other site 644282007698 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 644282007699 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 644282007700 B12 binding site [chemical binding]; other site 644282007701 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 644282007702 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 644282007703 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 644282007704 FeS/SAM binding site; other site 644282007705 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282007706 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 644282007707 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 644282007708 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 644282007709 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007710 Walker A/P-loop; other site 644282007711 ATP binding site [chemical binding]; other site 644282007712 Q-loop/lid; other site 644282007713 ABC transporter signature motif; other site 644282007714 Walker B; other site 644282007715 D-loop; other site 644282007716 H-loop/switch region; other site 644282007717 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 644282007718 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 644282007719 putative active site [active] 644282007720 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 644282007721 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007722 Walker A/P-loop; other site 644282007723 ATP binding site [chemical binding]; other site 644282007724 Q-loop/lid; other site 644282007725 ABC transporter signature motif; other site 644282007726 Walker B; other site 644282007727 D-loop; other site 644282007728 H-loop/switch region; other site 644282007729 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 644282007730 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282007731 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 644282007732 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 644282007733 AMP-binding enzyme; Region: AMP-binding; cl15778 644282007734 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282007735 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 644282007736 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282007737 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 644282007738 FeS/SAM binding site; other site 644282007739 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 644282007740 Radical SAM superfamily; Region: Radical_SAM; pfam04055 644282007741 FeS/SAM binding site; other site 644282007742 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 644282007743 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 644282007744 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 644282007745 Walker A/P-loop; other site 644282007746 ATP binding site [chemical binding]; other site 644282007747 Q-loop/lid; other site 644282007748 ABC transporter signature motif; other site 644282007749 Walker B; other site 644282007750 D-loop; other site 644282007751 H-loop/switch region; other site 644282007752 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 644282007753 FeS/SAM binding site; other site 644282007754 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 644282007755 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 644282007756 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 644282007757 FeS/SAM binding site; other site 644282007758 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 644282007759 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 644282007760 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282007761 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 644282007762 active site 644282007763 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 644282007764 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 644282007765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282007766 metal binding site [ion binding]; metal-binding site 644282007767 active site 644282007768 I-site; other site 644282007769 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282007770 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 644282007771 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282007772 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282007773 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 644282007774 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 644282007775 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 644282007776 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 644282007777 FeS/SAM binding site; other site 644282007778 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 644282007779 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 644282007780 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 644282007781 Walker A motif; other site 644282007782 ATP binding site [chemical binding]; other site 644282007783 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 644282007784 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 644282007785 metal ion-dependent adhesion site (MIDAS); other site 644282007786 Predicted amidohydrolase [General function prediction only]; Region: COG0388 644282007787 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 644282007788 active site 644282007789 catalytic triad [active] 644282007790 dimer interface [polypeptide binding]; other site 644282007791 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 644282007792 active site 644282007793 catalytic triad [active] 644282007794 dimer interface [polypeptide binding]; other site 644282007795 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 644282007796 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 644282007797 N-terminal plug; other site 644282007798 ligand-binding site [chemical binding]; other site 644282007799 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 644282007800 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 644282007801 Walker A/P-loop; other site 644282007802 ATP binding site [chemical binding]; other site 644282007803 Q-loop/lid; other site 644282007804 ABC transporter signature motif; other site 644282007805 Walker B; other site 644282007806 D-loop; other site 644282007807 H-loop/switch region; other site 644282007808 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 644282007809 Walker A/P-loop; other site 644282007810 ATP binding site [chemical binding]; other site 644282007811 Q-loop/lid; other site 644282007812 ABC transporter signature motif; other site 644282007813 Walker B; other site 644282007814 D-loop; other site 644282007815 H-loop/switch region; other site 644282007816 FOG: WD40-like repeat [Function unknown]; Region: COG1520 644282007817 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 644282007818 PQQ-like domain; Region: PQQ_2; pfam13360 644282007819 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 644282007820 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 644282007821 Cobalt transport protein; Region: CbiQ; cl00463 644282007822 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 644282007823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007825 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 644282007826 Fic family protein [Function unknown]; Region: COG3177 644282007827 Fic/DOC family; Region: Fic; cl00960 644282007828 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 644282007829 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 644282007830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007832 Family description; Region: UvrD_C_2; cl15862 644282007833 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 644282007834 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 644282007835 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 644282007836 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 644282007837 ATP binding site [chemical binding]; other site 644282007838 putative Mg++ binding site [ion binding]; other site 644282007839 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 644282007840 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644282007841 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 644282007842 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 644282007843 BRO family, N-terminal domain; Region: Bro-N; cl10591 644282007844 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644282007845 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 644282007846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007847 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 644282007848 HsdM N-terminal domain; Region: HsdM_N; pfam12161 644282007849 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 644282007850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007851 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282007852 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 644282007853 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 644282007854 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 644282007855 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282007856 Phage capsid family; Region: Phage_capsid; pfam05065 644282007857 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 644282007858 Phage portal protein; Region: Phage_portal; pfam04860 644282007859 Phage-related protein [Function unknown]; Region: COG4695; cl01923 644282007860 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 644282007861 Phage Terminase; Region: Terminase_1; pfam03354 644282007862 Phage terminase, small subunit; Region: Terminase_4; cl01525 644282007863 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 644282007864 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 644282007865 non-specific DNA binding site [nucleotide binding]; other site 644282007866 salt bridge; other site 644282007867 sequence-specific DNA binding site [nucleotide binding]; other site 644282007868 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 644282007869 non-specific DNA binding site [nucleotide binding]; other site 644282007870 salt bridge; other site 644282007871 sequence-specific DNA binding site [nucleotide binding]; other site 644282007872 ParB-like nuclease domain; Region: ParBc; cl02129 644282007873 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 644282007874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007875 Protein of unknown function (DUF968); Region: DUF968; pfam06147 644282007876 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 644282007877 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282007878 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 644282007879 hypothetical protein; Validated; Region: PRK07078 644282007880 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 644282007881 active site 644282007882 metal binding site [ion binding]; metal-binding site 644282007883 D5 N terminal like; Region: D5_N; cl07360 644282007884 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 644282007885 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 644282007886 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 644282007887 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 644282007888 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 644282007889 catalytic residues [active] 644282007890 catalytic nucleophile [active] 644282007891 Presynaptic Site I dimer interface [polypeptide binding]; other site 644282007892 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644282007893 Synaptic Flat tetramer interface [polypeptide binding]; other site 644282007894 Synaptic Site I dimer interface [polypeptide binding]; other site 644282007895 DNA binding site [nucleotide binding] 644282007896 Recombinase; Region: Recombinase; pfam07508 644282007897 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 644282007898 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 644282007899 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 644282007900 additional DNA contacts [nucleotide binding]; other site 644282007901 mismatch recognition site; other site 644282007902 active site 644282007903 zinc binding site [ion binding]; other site 644282007904 DNA intercalation site [nucleotide binding]; other site 644282007905 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 644282007906 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 644282007907 Putative catalytic domain of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar4; cd09132 644282007908 putative active site [active] 644282007909 putative catalytic site [active] 644282007910 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 644282007911 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 644282007912 nucleotide binding region [chemical binding]; other site 644282007913 ATP-binding site [chemical binding]; other site 644282007914 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 644282007915 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 644282007916 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 644282007917 Restriction endonuclease; Region: Mrr_cat; cl00516 644282007918 DEAD-like helicases superfamily; Region: DEXDc; smart00487 644282007919 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 644282007920 ATP binding site [chemical binding]; other site 644282007921 putative Mg++ binding site [ion binding]; other site 644282007922 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 644282007923 nucleotide binding region [chemical binding]; other site 644282007924 ATP-binding site [chemical binding]; other site 644282007925 AAA domain; Region: AAA_27; pfam13514 644282007926 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 644282007927 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; cl15754 644282007928 cofactor binding site; other site 644282007929 DNA binding site [nucleotide binding] 644282007930 substrate interaction site [chemical binding]; other site 644282007931 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282007932 DNA binding residues [nucleotide binding] 644282007933 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 644282007934 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 644282007935 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 644282007936 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 644282007937 oligomerization interface [polypeptide binding]; other site 644282007938 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 644282007939 Phage capsid family; Region: Phage_capsid; pfam05065 644282007940 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 644282007941 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 644282007942 oligomer interface [polypeptide binding]; other site 644282007943 active site residues [active] 644282007944 Phage-related protein [Function unknown]; Region: COG4695; cl01923 644282007945 Phage portal protein; Region: Phage_portal; pfam04860 644282007946 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 644282007947 Phage Terminase; Region: Terminase_1; pfam03354 644282007948 Phage terminase, small subunit; Region: Terminase_4; cl01525 644282007949 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 644282007950 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 644282007951 non-specific DNA binding site [nucleotide binding]; other site 644282007952 salt bridge; other site 644282007953 sequence-specific DNA binding site [nucleotide binding]; other site 644282007954 ParB-like nuclease domain; Region: ParBc; cl02129 644282007955 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 644282007956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007957 ParB-like nuclease domain; Region: ParBc; cl02129 644282007958 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 644282007959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282007960 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 644282007961 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 644282007962 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282007963 Fic family protein [Function unknown]; Region: COG3177 644282007964 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 644282007965 Fic/DOC family; Region: Fic; cl00960 644282007966 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 644282007967 hypothetical protein; Validated; Region: PRK07078 644282007968 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 644282007969 active site 644282007970 metal binding site [ion binding]; metal-binding site 644282007971 interdomain interaction site; other site 644282007972 D5 N terminal like; Region: D5_N; cl07360 644282007973 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 644282007974 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 644282007975 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 644282007976 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 644282007977 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 644282007978 catalytic residues [active] 644282007979 catalytic nucleophile [active] 644282007980 Presynaptic Site I dimer interface [polypeptide binding]; other site 644282007981 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 644282007982 Synaptic Flat tetramer interface [polypeptide binding]; other site 644282007983 Synaptic Site I dimer interface [polypeptide binding]; other site 644282007984 DNA binding site [nucleotide binding] 644282007985 Recombinase; Region: Recombinase; pfam07508 644282007986 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 644282007987 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 644282007988 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 644282007989 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282007990 putative acyl-acceptor binding pocket; other site 644282007991 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 644282007992 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 644282007993 ATP binding site [chemical binding]; other site 644282007994 putative Mg++ binding site [ion binding]; other site 644282007995 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282007996 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 644282007997 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 644282007998 DNA binding residues [nucleotide binding] 644282007999 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 644282008000 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 644282008001 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282008002 putative active site [active] 644282008003 heme pocket [chemical binding]; other site 644282008004 sensory histidine kinase AtoS; Provisional; Region: PRK11360 644282008005 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 644282008006 dimer interface [polypeptide binding]; other site 644282008007 phosphorylation site [posttranslational modification] 644282008008 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 644282008009 ATP binding site [chemical binding]; other site 644282008010 Mg2+ binding site [ion binding]; other site 644282008011 G-X-G motif; other site 644282008012 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008014 active site 644282008015 phosphorylation site [posttranslational modification] 644282008016 intermolecular recognition site; other site 644282008017 dimerization interface [polypeptide binding]; other site 644282008018 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 644282008019 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282008020 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 644282008021 substrate binding pocket [chemical binding]; other site 644282008022 membrane-bound complex binding site; other site 644282008023 hinge residues; other site 644282008024 GTP-binding protein LepA; Provisional; Region: PRK05433 644282008025 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 644282008026 G1 box; other site 644282008027 putative GEF interaction site [polypeptide binding]; other site 644282008028 GTP/Mg2+ binding site [chemical binding]; other site 644282008029 Switch I region; other site 644282008030 G2 box; other site 644282008031 G3 box; other site 644282008032 Switch II region; other site 644282008033 G4 box; other site 644282008034 G5 box; other site 644282008035 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 644282008036 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 644282008037 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 644282008038 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 644282008039 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 644282008040 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 644282008041 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 644282008042 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 644282008043 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 644282008044 NMT1-like family; Region: NMT1_2; cl15260 644282008045 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 644282008046 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 644282008047 active site residue [active] 644282008048 DoxX; Region: DoxX; cl00976 644282008049 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 644282008050 catalytic residues [active] 644282008051 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 644282008052 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 644282008053 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 644282008054 Walker A/P-loop; other site 644282008055 ATP binding site [chemical binding]; other site 644282008056 Q-loop/lid; other site 644282008057 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 644282008058 4Fe-4S binding domain; Region: Fer4; cl02805 644282008059 4Fe-4S binding domain; Region: Fer4; cl02805 644282008060 GAF domain; Region: GAF; cl15785 644282008061 GAF domain; Region: GAF; cl15785 644282008062 GAF domain; Region: GAF_2; pfam13185 644282008063 GAF domain; Region: GAF; cl15785 644282008064 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 644282008065 dimer interface [polypeptide binding]; other site 644282008066 phosphorylation site [posttranslational modification] 644282008067 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 644282008068 ATP binding site [chemical binding]; other site 644282008069 Mg2+ binding site [ion binding]; other site 644282008070 G-X-G motif; other site 644282008071 glycogen synthase; Provisional; Region: glgA; PRK00654 644282008072 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 644282008073 ADP-binding pocket [chemical binding]; other site 644282008074 homodimer interface [polypeptide binding]; other site 644282008075 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 644282008076 PAS fold; Region: PAS_4; pfam08448 644282008077 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 644282008078 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 644282008079 dimer interface [polypeptide binding]; other site 644282008080 phosphorylation site [posttranslational modification] 644282008081 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 644282008082 ATP binding site [chemical binding]; other site 644282008083 Mg2+ binding site [ion binding]; other site 644282008084 G-X-G motif; other site 644282008085 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008087 active site 644282008088 phosphorylation site [posttranslational modification] 644282008089 intermolecular recognition site; other site 644282008090 dimerization interface [polypeptide binding]; other site 644282008091 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 ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 644282008092 putative ADP-ribose binding site [chemical binding]; other site 644282008093 putative active site [active] 644282008094 MltA specific insert domain; Region: MltA; cl08398 644282008095 3D domain; Region: 3D; cl01439 644282008096 Protein of unknown function DUF89; Region: DUF89; cl15397 644282008097 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 644282008098 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 644282008099 ATP binding site [chemical binding]; other site 644282008100 putative Mg++ binding site [ion binding]; other site 644282008101 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 644282008102 nucleotide binding region [chemical binding]; other site 644282008103 ATP-binding site [chemical binding]; other site 644282008104 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 644282008105 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 644282008106 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG4871 644282008107 Putative Fe-S cluster; Region: FeS; pfam04060 644282008108 Low molecular weight phosphatase family; Region: LMWPc; cd00115 644282008109 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 644282008110 active site 644282008111 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 644282008112 dimerization interface [polypeptide binding]; other site 644282008113 putative DNA binding site [nucleotide binding]; other site 644282008114 putative Zn2+ binding site [ion binding]; other site 644282008115 Low molecular weight phosphatase family; Region: LMWPc; cd00115 644282008116 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 644282008117 active site 644282008118 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 644282008119 Membrane transport protein; Region: Mem_trans; cl09117 644282008120 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 644282008121 catalytic residues [active] 644282008122 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 644282008123 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 644282008124 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 644282008125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008126 dihydroorotase; Validated; Region: pyrC; PRK09357 644282008127 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 644282008128 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 644282008129 active site 644282008130 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 644282008131 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 644282008132 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 644282008133 ssDNA binding site; other site 644282008134 generic binding surface II; other site 644282008135 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 644282008136 nucleotide binding region [chemical binding]; other site 644282008137 ATP-binding site [chemical binding]; other site 644282008138 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 644282008139 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 644282008140 inhibitor-cofactor binding pocket; inhibition site 644282008141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282008142 catalytic residue [active] 644282008143 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 644282008144 NAD+ binding site [chemical binding]; other site 644282008145 substrate binding site [chemical binding]; other site 644282008146 Zn binding site [ion binding]; other site 644282008147 DsrE/DsrF-like family; Region: DrsE; cl00672 644282008148 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 644282008149 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 644282008150 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 644282008151 phosphorylation site [posttranslational modification] 644282008152 dimer interface [polypeptide binding]; other site 644282008153 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 644282008154 ATP binding site [chemical binding]; other site 644282008155 Mg2+ binding site [ion binding]; other site 644282008156 G-X-G motif; other site 644282008157 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 644282008158 heme-binding site [chemical binding]; other site 644282008159 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 644282008160 dimer interface [polypeptide binding]; other site 644282008161 phosphorylation site [posttranslational modification] 644282008162 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 644282008163 ATP binding site [chemical binding]; other site 644282008164 Mg2+ binding site [ion binding]; other site 644282008165 G-X-G motif; other site 644282008166 Rhomboid family; Region: Rhomboid; cl11446 644282008167 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 644282008168 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 644282008169 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 644282008170 FeS/SAM binding site; other site 644282008171 TRAM domain; Region: TRAM; cl01282 644282008172 Bifunctional nuclease; Region: DNase-RNase; cl00553 644282008173 hypothetical protein; Provisional; Region: PRK06361 644282008174 Flagellin N-methylase; Region: FliB; cl00497 644282008175 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 644282008176 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 644282008177 periplasmic folding chaperone; Provisional; Region: PRK10788 644282008178 SurA N-terminal domain; Region: SurA_N_3; cl07813 644282008179 PPIC-type PPIASE domain; Region: Rotamase; cl08278 644282008180 PPIC-type PPIASE domain; Region: Rotamase; cl08278 644282008181 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 644282008182 homodimer interaction site [polypeptide binding]; other site 644282008183 cofactor binding site; other site 644282008184 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282008185 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 644282008186 cobyric acid synthase; Provisional; Region: PRK00784 644282008187 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 644282008188 catalytic triad [active] 644282008189 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282008190 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 644282008191 Cobalt transport protein; Region: CbiQ; cl00463 644282008192 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 644282008193 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 644282008194 Walker A/P-loop; other site 644282008195 ATP binding site [chemical binding]; other site 644282008196 Q-loop/lid; other site 644282008197 ABC transporter signature motif; other site 644282008198 Walker B; other site 644282008199 D-loop; other site 644282008200 H-loop/switch region; other site 644282008201 SprA-related family; Region: SprA-related; pfam12118 644282008202 PilZ domain; Region: PilZ; cl01260 644282008203 PAS fold; Region: PAS_3; pfam08447 644282008204 PAS domain S-box; Region: sensory_box; TIGR00229 644282008205 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 644282008206 putative active site [active] 644282008207 heme pocket [chemical binding]; other site 644282008208 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 644282008209 PAS domain; Region: PAS_9; pfam13426 644282008210 PAS domain S-box; Region: sensory_box; TIGR00229 644282008211 sensory histidine kinase AtoS; Provisional; Region: PRK11360 644282008212 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 644282008213 dimer interface [polypeptide binding]; other site 644282008214 phosphorylation site [posttranslational modification] 644282008215 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 644282008216 ATP binding site [chemical binding]; other site 644282008217 G-X-G motif; other site 644282008218 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008220 active site 644282008221 phosphorylation site [posttranslational modification] 644282008222 intermolecular recognition site; other site 644282008223 dimerization interface [polypeptide binding]; other site 644282008224 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 644282008225 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 644282008226 putative homodimer interface [polypeptide binding]; other site 644282008227 putative active site pocket [active] 644282008228 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 644282008229 Acylphosphatase; Region: Acylphosphatase; cl00551 644282008230 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 644282008231 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 644282008232 nucleotide binding pocket [chemical binding]; other site 644282008233 K-X-D-G motif; other site 644282008234 catalytic site [active] 644282008235 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 644282008236 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 644282008237 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 644282008238 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 644282008239 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 644282008240 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 644282008241 active site 644282008242 substrate binding site [chemical binding]; other site 644282008243 metal binding site [ion binding]; metal-binding site 644282008244 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 644282008245 Domain of unknown function (DUF368); Region: DUF368; cl00893 644282008246 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 644282008247 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 644282008248 Substrate binding site; other site 644282008249 Cupin domain; Region: Cupin_2; cl09118 644282008250 Bacitracin resistance protein BacA; Region: BacA; cl00858 644282008251 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 644282008252 IHF dimer interface [polypeptide binding]; other site 644282008253 IHF - DNA interface [nucleotide binding]; other site 644282008254 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 644282008255 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 644282008256 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282008257 Zn2+ binding site [ion binding]; other site 644282008258 Mg2+ binding site [ion binding]; other site 644282008259 Sporulation related domain; Region: SPOR; cl10051 644282008260 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 644282008261 intersubunit interface [polypeptide binding]; other site 644282008262 active site 644282008263 Zn2+ binding site [ion binding]; other site 644282008264 Cupin domain; Region: Cupin_2; cl09118 644282008265 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 644282008266 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 644282008267 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 644282008268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282008269 homodimer interface [polypeptide binding]; other site 644282008270 catalytic residue [active] 644282008271 cytidylate kinase; Provisional; Region: cmk; PRK00023 644282008272 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 644282008273 CMP-binding site; other site 644282008274 The sites determining sugar specificity; other site 644282008275 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 644282008276 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 644282008277 RNA binding site [nucleotide binding]; other site 644282008278 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 644282008279 RNA binding site [nucleotide binding]; other site 644282008280 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 644282008281 RNA binding site [nucleotide binding]; other site 644282008282 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 644282008283 RNA binding site [nucleotide binding]; other site 644282008284 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 644282008285 RNA binding site [nucleotide binding]; other site 644282008286 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 644282008287 RNA binding site [nucleotide binding]; other site 644282008288 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 644282008289 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 644282008290 tandem repeat interface [polypeptide binding]; other site 644282008291 oligomer interface [polypeptide binding]; other site 644282008292 active site residues [active] 644282008293 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 644282008294 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644282008295 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 644282008296 ATP binding site [chemical binding]; other site 644282008297 Mg2+ binding site [ion binding]; other site 644282008298 G-X-G motif; other site 644282008299 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 644282008300 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 644282008301 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 644282008302 AMP-binding enzyme; Region: AMP-binding; cl15778 644282008303 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282008304 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 644282008305 Rubredoxin; Region: Rubredoxin; pfam00301 644282008306 iron binding site [ion binding]; other site 644282008307 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 644282008308 Cache domain; Region: Cache_1; pfam02743 644282008309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282008310 dimer interface [polypeptide binding]; other site 644282008311 putative CheW interface [polypeptide binding]; other site 644282008312 DNA polymerase I; Provisional; Region: PRK05755 644282008313 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 644282008314 active site 644282008315 metal binding site 1 [ion binding]; metal-binding site 644282008316 putative 5' ssDNA interaction site; other site 644282008317 metal binding site 3; metal-binding site 644282008318 metal binding site 2 [ion binding]; metal-binding site 644282008319 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 644282008320 putative DNA binding site [nucleotide binding]; other site 644282008321 putative metal binding site [ion binding]; other site 644282008322 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 644282008323 active site 644282008324 catalytic site [active] 644282008325 substrate binding site [chemical binding]; other site 644282008326 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 644282008327 active site 644282008328 DNA binding site [nucleotide binding] 644282008329 catalytic site [active] 644282008330 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 644282008331 ATP synthase I chain; Region: ATP_synt_I; cl09170 644282008332 ATP synthase A chain; Region: ATP-synt_A; cl00413 644282008333 ATP synthase subunit C; Region: ATP-synt_C; cl00466 644282008334 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 644282008335 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 644282008336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008337 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 644282008338 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 644282008339 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 644282008340 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 644282008341 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 644282008342 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 644282008343 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 644282008344 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 644282008345 catalytic residues [active] 644282008346 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 644282008347 dimerization interface [polypeptide binding]; other site 644282008348 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 644282008349 ATP binding site [chemical binding]; other site 644282008350 Hydrogenase formation hypA family; Region: HypD; cl12072 644282008351 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 644282008352 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 644282008353 Acylphosphatase; Region: Acylphosphatase; cl00551 644282008354 HypF finger; Region: zf-HYPF; pfam07503 644282008355 HypF finger; Region: zf-HYPF; pfam07503 644282008356 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 644282008357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282008358 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 644282008359 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 644282008360 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 644282008361 Transglycosylase; Region: Transgly; cl07896 644282008362 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 644282008363 RNA binding site [nucleotide binding]; other site 644282008364 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 644282008365 FOG: CBS domain [General function prediction only]; Region: COG0517 644282008366 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 644282008367 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 644282008368 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 644282008369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282008370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282008371 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282008372 dimer interface [polypeptide binding]; other site 644282008373 putative CheW interface [polypeptide binding]; other site 644282008374 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 644282008375 AMP-binding enzyme; Region: AMP-binding; cl15778 644282008376 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282008377 ANTAR domain; Region: ANTAR; cl04297 644282008378 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 644282008379 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 644282008380 active site 644282008381 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 644282008382 active site 644282008383 FOG: CBS domain [General function prediction only]; Region: COG0517 644282008384 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 644282008385 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 644282008386 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 644282008387 nucleophile elbow; other site 644282008388 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 644282008389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008390 CoA-ligase; Region: Ligase_CoA; cl02894 644282008391 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282008392 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 644282008393 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 644282008394 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 644282008395 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 644282008396 active site 644282008397 dimer interface [polypeptide binding]; other site 644282008398 effector binding site; other site 644282008399 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 644282008400 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 644282008401 PspC domain; Region: PspC; cl00864 644282008402 phage shock protein C; Region: phageshock_pspC; TIGR02978 644282008403 Phage shock protein B; Region: PspB; cl05946 644282008404 phage shock protein A; Region: phageshock_pspA; TIGR02977 644282008405 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 644282008406 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 644282008407 Walker A motif; other site 644282008408 ATP binding site [chemical binding]; other site 644282008409 Walker B motif; other site 644282008410 arginine finger; other site 644282008411 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282008412 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 644282008413 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282008414 DNA binding residues [nucleotide binding] 644282008415 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 644282008416 active site 644282008417 cosubstrate binding site; other site 644282008418 substrate binding site [chemical binding]; other site 644282008419 catalytic site [active] 644282008420 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 644282008421 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 644282008422 putative ADP-binding pocket [chemical binding]; other site 644282008423 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282008424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008425 NAD(P) binding site [chemical binding]; other site 644282008426 active site 644282008427 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 644282008428 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 644282008429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008430 NAD(P) binding site [chemical binding]; other site 644282008431 active site 644282008432 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 644282008433 active site 644282008434 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 644282008435 homodimer interface [polypeptide binding]; other site 644282008436 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 644282008437 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008438 active site 644282008439 phosphorylation site [posttranslational modification] 644282008440 intermolecular recognition site; other site 644282008441 dimerization interface [polypeptide binding]; other site 644282008442 CheB methylesterase; Region: CheB_methylest; pfam01339 644282008443 Chemotaxis phosphatase CheX; Region: CheX; cl15816 644282008444 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008446 active site 644282008447 phosphorylation site [posttranslational modification] 644282008448 intermolecular recognition site; other site 644282008449 dimerization interface [polypeptide binding]; other site 644282008450 HDOD domain; Region: HDOD; pfam08668 644282008451 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282008452 CheD chemotactic sensory transduction; Region: CheD; cl00810 644282008453 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 644282008454 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 644282008455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008456 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 644282008457 putative CheA interaction surface; other site 644282008458 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 644282008459 putative binding surface; other site 644282008460 active site 644282008461 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 644282008462 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 644282008463 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 644282008464 ATP binding site [chemical binding]; other site 644282008465 Mg2+ binding site [ion binding]; other site 644282008466 G-X-G motif; other site 644282008467 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 644282008468 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 644282008469 IHF dimer interface [polypeptide binding]; other site 644282008470 IHF - DNA interface [nucleotide binding]; other site 644282008471 MraZ protein; Region: MraZ; pfam02381 644282008472 MraZ protein; Region: MraZ; pfam02381 644282008473 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 644282008474 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282008475 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 644282008476 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 644282008477 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 644282008478 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 644282008479 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 644282008480 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644282008481 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282008482 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282008483 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 644282008484 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644282008485 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282008486 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282008487 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 644282008488 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 644282008489 Mg++ binding site [ion binding]; other site 644282008490 putative catalytic motif [active] 644282008491 putative substrate binding site [chemical binding]; other site 644282008492 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282008493 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 644282008494 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282008495 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 644282008496 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 644282008497 active site 644282008498 homodimer interface [polypeptide binding]; other site 644282008499 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 644282008500 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 644282008501 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 644282008502 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 644282008503 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 644282008504 FAD binding domain; Region: FAD_binding_4; pfam01565 644282008505 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 644282008506 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 644282008507 Cell division protein FtsQ; Region: FtsQ; pfam03799 644282008508 cell division protein FtsA; Region: ftsA; TIGR01174 644282008509 Cell division protein FtsA; Region: FtsA; cl11496 644282008510 Cell division protein FtsA; Region: FtsA; cl11496 644282008511 cell division protein FtsZ; Validated; Region: PRK09330 644282008512 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 644282008513 nucleotide binding site [chemical binding]; other site 644282008514 SulA interaction site; other site 644282008515 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 644282008516 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 644282008517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282008518 Coenzyme A binding pocket [chemical binding]; other site 644282008519 Putative transposon-encoded protein (DUF2080); Region: DUF2080; cl01376 644282008520 ParB-like nuclease domain; Region: ParBc; cl02129 644282008521 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 644282008522 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 644282008523 S-adenosylmethionine binding site [chemical binding]; other site 644282008524 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 644282008525 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 644282008526 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 644282008527 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 644282008528 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282008529 dimer interface [polypeptide binding]; other site 644282008530 putative CheW interface [polypeptide binding]; other site 644282008531 OpgC protein; Region: OpgC_C; cl00792 644282008532 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 644282008533 Helix-turn-helix domains; Region: HTH; cl00088 644282008534 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 644282008535 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 644282008536 PAS fold; Region: PAS_3; pfam08447 644282008537 putative active site [active] 644282008538 heme pocket [chemical binding]; other site 644282008539 PAS domain S-box; Region: sensory_box; TIGR00229 644282008540 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 644282008541 putative active site [active] 644282008542 heme pocket [chemical binding]; other site 644282008543 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 644282008544 histidine kinase; Provisional; Region: PRK13557 644282008545 putative active site [active] 644282008546 heme pocket [chemical binding]; other site 644282008547 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 644282008548 dimer interface [polypeptide binding]; other site 644282008549 phosphorylation site [posttranslational modification] 644282008550 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 644282008551 ATP binding site [chemical binding]; other site 644282008552 Mg2+ binding site [ion binding]; other site 644282008553 G-X-G motif; other site 644282008554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008555 active site 644282008556 phosphorylation site [posttranslational modification] 644282008557 intermolecular recognition site; other site 644282008558 dimerization interface [polypeptide binding]; other site 644282008559 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 644282008560 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282008561 substrate binding pocket [chemical binding]; other site 644282008562 membrane-bound complex binding site; other site 644282008563 hinge residues; other site 644282008564 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282008565 Helix-turn-helix domains; Region: HTH; cl00088 644282008566 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644282008567 Protein export membrane protein; Region: SecD_SecF; cl14618 644282008568 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 644282008569 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 644282008570 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282008571 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282008572 Cupin domain; Region: Cupin_2; cl09118 644282008573 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282008574 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282008575 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282008576 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 644282008577 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 644282008578 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 644282008579 N-terminal plug; other site 644282008580 ligand-binding site [chemical binding]; other site 644282008581 Helix-turn-helix domains; Region: HTH; cl00088 644282008582 Integrase core domain; Region: rve; cl01316 644282008583 Integrase core domain; Region: rve_3; cl15866 644282008584 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 644282008585 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 644282008586 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 644282008587 Protein export membrane protein; Region: SecD_SecF; cl14618 644282008588 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 644282008589 Helix-turn-helix domains; Region: HTH; cl00088 644282008590 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 644282008591 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 644282008592 putative dimer interface [polypeptide binding]; other site 644282008593 [2Fe-2S] cluster binding site [ion binding]; other site 644282008594 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 644282008595 dimer interface [polypeptide binding]; other site 644282008596 [2Fe-2S] cluster binding site [ion binding]; other site 644282008597 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 644282008598 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 644282008599 SLBB domain; Region: SLBB; pfam10531 644282008600 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 644282008601 4Fe-4S binding domain; Region: Fer4; cl02805 644282008602 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282008603 4Fe-4S binding domain; Region: Fer4; cl02805 644282008604 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 644282008605 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 644282008606 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 644282008607 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 644282008608 4Fe-4S binding domain; Region: Fer4; cl02805 644282008609 thiosulfate reductase PhsA; Provisional; Region: PRK15488 644282008610 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 644282008611 putative [Fe4-S4] binding site [ion binding]; other site 644282008612 putative molybdopterin cofactor binding site [chemical binding]; other site 644282008613 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 644282008614 putative molybdopterin cofactor binding site; other site 644282008615 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 644282008616 putative CheA interaction surface; other site 644282008617 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008619 active site 644282008620 phosphorylation site [posttranslational modification] 644282008621 intermolecular recognition site; other site 644282008622 dimerization interface [polypeptide binding]; other site 644282008623 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 644282008624 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 644282008625 Walker A motif; other site 644282008626 ATP binding site [chemical binding]; other site 644282008627 Walker B motif; other site 644282008628 arginine finger; other site 644282008629 PAS domain S-box; Region: sensory_box; TIGR00229 644282008630 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 644282008631 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282008632 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 644282008633 dimer interface [polypeptide binding]; other site 644282008634 phosphorylation site [posttranslational modification] 644282008635 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 644282008636 ATP binding site [chemical binding]; other site 644282008637 Mg2+ binding site [ion binding]; other site 644282008638 G-X-G motif; other site 644282008639 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 644282008640 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 644282008641 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 644282008642 Flagellin N-methylase; Region: FliB; cl00497 644282008643 Flagellin N-methylase; Region: FliB; cl00497 644282008644 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282008645 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 644282008646 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 644282008647 TPP-binding site [chemical binding]; other site 644282008648 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 644282008649 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 644282008650 dimer interface [polypeptide binding]; other site 644282008651 PYR/PP interface [polypeptide binding]; other site 644282008652 TPP binding site [chemical binding]; other site 644282008653 substrate binding site [chemical binding]; other site 644282008654 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 644282008655 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 644282008656 Response regulator receiver domain; Region: Response_reg; pfam00072 644282008657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008658 active site 644282008659 phosphorylation site [posttranslational modification] 644282008660 intermolecular recognition site; other site 644282008661 dimerization interface [polypeptide binding]; other site 644282008662 PAS fold; Region: PAS_4; pfam08448 644282008663 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 644282008664 putative active site [active] 644282008665 heme pocket [chemical binding]; other site 644282008666 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 644282008667 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 644282008668 putative active site [active] 644282008669 heme pocket [chemical binding]; other site 644282008670 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282008671 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 644282008672 putative active site [active] 644282008673 heme pocket [chemical binding]; other site 644282008674 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 644282008675 ATP binding site [chemical binding]; other site 644282008676 Mg2+ binding site [ion binding]; other site 644282008677 G-X-G motif; other site 644282008678 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 644282008679 xanthine permease; Region: pbuX; TIGR03173 644282008680 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 644282008681 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 644282008682 alanine racemase; Reviewed; Region: alr; PRK00053 644282008683 active site 644282008684 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 644282008685 dimer interface [polypeptide binding]; other site 644282008686 substrate binding site [chemical binding]; other site 644282008687 catalytic residues [active] 644282008688 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 644282008689 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 644282008690 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 644282008691 active site 644282008692 HIGH motif; other site 644282008693 KMSK motif region; other site 644282008694 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 644282008695 tRNA binding surface [nucleotide binding]; other site 644282008696 anticodon binding site; other site 644282008697 Sporulation related domain; Region: SPOR; cl10051 644282008698 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 644282008699 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282008700 Coenzyme A binding pocket [chemical binding]; other site 644282008701 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 644282008702 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 644282008703 Peptidase family M23; Region: Peptidase_M23; pfam01551 644282008704 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 644282008705 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 644282008706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282008707 ATP binding site [chemical binding]; other site 644282008708 putative Mg++ binding site [ion binding]; other site 644282008709 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 644282008710 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 644282008711 nucleotide binding region [chemical binding]; other site 644282008712 ATP-binding site [chemical binding]; other site 644282008713 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 644282008714 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 644282008715 Uncharacterized membrane protein (DUF2298); Region: DUF2298; cl02250 644282008716 Uncharacterized membrane protein (DUF2298); Region: DUF2298; cl02250 644282008717 Uncharacterized membrane protein (DUF2298); Region: DUF2298; cl02250 644282008718 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 644282008719 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 644282008720 active site 644282008721 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 644282008722 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 644282008723 heterotetramer interface [polypeptide binding]; other site 644282008724 active site pocket [active] 644282008725 cleavage site 644282008726 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 644282008727 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 644282008728 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 644282008729 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 644282008730 FAD binding pocket [chemical binding]; other site 644282008731 FAD binding motif [chemical binding]; other site 644282008732 phosphate binding motif [ion binding]; other site 644282008733 beta-alpha-beta structure motif; other site 644282008734 NAD binding pocket [chemical binding]; other site 644282008735 Iron coordination center [ion binding]; other site 644282008736 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 644282008737 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 644282008738 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 644282008739 heterodimer interface [polypeptide binding]; other site 644282008740 active site 644282008741 FMN binding site [chemical binding]; other site 644282008742 homodimer interface [polypeptide binding]; other site 644282008743 substrate binding site [chemical binding]; other site 644282008744 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 644282008745 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 644282008746 G1 box; other site 644282008747 putative GEF interaction site [polypeptide binding]; other site 644282008748 GTP/Mg2+ binding site [chemical binding]; other site 644282008749 Switch I region; other site 644282008750 G2 box; other site 644282008751 G3 box; other site 644282008752 Switch II region; other site 644282008753 G4 box; other site 644282008754 G5 box; other site 644282008755 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 644282008756 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 644282008757 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 644282008758 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 644282008759 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 644282008760 YceG-like family; Region: YceG; pfam02618 644282008761 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 644282008762 dimerization interface [polypeptide binding]; other site 644282008763 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282008764 Helix-turn-helix domains; Region: HTH; cl00088 644282008765 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 644282008766 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 644282008767 Ligand binding site [chemical binding]; other site 644282008768 Electron transfer flavoprotein domain; Region: ETF; pfam01012 644282008769 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 644282008770 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 644282008771 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 644282008772 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 644282008773 Helix-turn-helix domains; Region: HTH; cl00088 644282008774 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 becoming...; Region: Lipase; cl14883 644282008775 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 644282008776 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282008777 nucleophilic elbow; other site 644282008778 catalytic triad; other site 644282008779 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282008780 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 644282008781 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 644282008782 nudix motif; other site 644282008783 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282008784 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 644282008785 substrate binding site [chemical binding]; other site 644282008786 oxyanion hole (OAH) forming residues; other site 644282008787 trimer interface [polypeptide binding]; other site 644282008788 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 644282008789 putative FMN binding site [chemical binding]; other site 644282008790 Sulfatase; Region: Sulfatase; cl10460 644282008791 Peptidase family M48; Region: Peptidase_M48; cl12018 644282008792 TPR repeat; Region: TPR_11; pfam13414 644282008793 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 644282008794 binding surface 644282008795 TPR motif; other site 644282008796 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 644282008797 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 644282008798 Chemotaxis phosphatase CheX; Region: CheX; cl15816 644282008799 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 644282008800 active site 644282008801 dimer interface [polypeptide binding]; other site 644282008802 hypothetical protein; Reviewed; Region: PRK00024 644282008803 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 644282008804 MPN+ (JAMM) motif; other site 644282008805 Zinc-binding site [ion binding]; other site 644282008806 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 644282008807 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 644282008808 FeS/SAM binding site; other site 644282008809 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 644282008810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282008811 active site 644282008812 phosphorylation site [posttranslational modification] 644282008813 intermolecular recognition site; other site 644282008814 dimerization interface [polypeptide binding]; other site 644282008815 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 644282008816 TPR motif; other site 644282008817 binding surface 644282008818 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282008819 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 644282008820 binding surface 644282008821 TPR motif; other site 644282008822 TPR repeat; Region: TPR_11; pfam13414 644282008823 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 644282008824 binding surface 644282008825 TPR motif; other site 644282008826 TPR repeat; Region: TPR_11; pfam13414 644282008827 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 644282008828 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 644282008829 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644282008830 Ligand binding site; other site 644282008831 Putative Catalytic site; other site 644282008832 DXD motif; other site 644282008833 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 644282008834 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 644282008835 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 644282008836 FeS/SAM binding site; other site 644282008837 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 644282008838 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 644282008839 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 644282008840 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 644282008841 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 644282008842 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 644282008843 alphaNTD homodimer interface [polypeptide binding]; other site 644282008844 alphaNTD - beta interaction site [polypeptide binding]; other site 644282008845 alphaNTD - beta' interaction site [polypeptide binding]; other site 644282008846 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 644282008847 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 644282008848 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 644282008849 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 644282008850 RNA binding surface [nucleotide binding]; other site 644282008851 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 644282008852 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 644282008853 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 644282008854 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 644282008855 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 644282008856 active site 644282008857 adenylate kinase; Reviewed; Region: adk; PRK00279 644282008858 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 644282008859 AMP-binding site [chemical binding]; other site 644282008860 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 644282008861 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 644282008862 SecY translocase; Region: SecY; pfam00344 644282008863 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 644282008864 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 644282008865 23S rRNA binding site [nucleotide binding]; other site 644282008866 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 644282008867 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 644282008868 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 644282008869 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 644282008870 5S rRNA interface [nucleotide binding]; other site 644282008871 23S rRNA interface [nucleotide binding]; other site 644282008872 L5 interface [polypeptide binding]; other site 644282008873 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 644282008874 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 644282008875 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 644282008876 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 644282008877 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 644282008878 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 644282008879 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 644282008880 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 644282008881 KOW motif; Region: KOW; cl00354 644282008882 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 644282008883 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 644282008884 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 644282008885 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 644282008886 putative translocon interaction site; other site 644282008887 signal recognition particle (SRP54) interaction site; other site 644282008888 L23 interface [polypeptide binding]; other site 644282008889 trigger factor interaction site; other site 644282008890 23S rRNA interface [nucleotide binding]; other site 644282008891 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 644282008892 23S rRNA interface [nucleotide binding]; other site 644282008893 5S rRNA interface [nucleotide binding]; other site 644282008894 putative antibiotic binding site [chemical binding]; other site 644282008895 L25 interface [polypeptide binding]; other site 644282008896 L27 interface [polypeptide binding]; other site 644282008897 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 644282008898 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 644282008899 G-X-X-G motif; other site 644282008900 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 644282008901 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 644282008902 putative translocon binding site; other site 644282008903 protein-rRNA interface [nucleotide binding]; other site 644282008904 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 644282008905 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 644282008906 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 644282008907 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 644282008908 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 644282008909 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 644282008910 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 644282008911 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 644282008912 elongation factor Tu; Reviewed; Region: PRK00049 644282008913 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 644282008914 G1 box; other site 644282008915 GEF interaction site [polypeptide binding]; other site 644282008916 GTP/Mg2+ binding site [chemical binding]; other site 644282008917 Switch I region; other site 644282008918 G2 box; other site 644282008919 G3 box; other site 644282008920 Switch II region; other site 644282008921 G4 box; other site 644282008922 G5 box; other site 644282008923 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 644282008924 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 644282008925 Antibiotic Binding Site [chemical binding]; other site 644282008926 elongation factor G; Reviewed; Region: PRK00007 644282008927 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 644282008928 G1 box; other site 644282008929 putative GEF interaction site [polypeptide binding]; other site 644282008930 GTP/Mg2+ binding site [chemical binding]; other site 644282008931 Switch I region; other site 644282008932 G2 box; other site 644282008933 G3 box; other site 644282008934 Switch II region; other site 644282008935 G4 box; other site 644282008936 G5 box; other site 644282008937 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 644282008938 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 644282008939 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 644282008940 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 644282008941 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 644282008942 S17 interaction site [polypeptide binding]; other site 644282008943 S8 interaction site; other site 644282008944 16S rRNA interaction site [nucleotide binding]; other site 644282008945 streptomycin interaction site [chemical binding]; other site 644282008946 23S rRNA interaction site [nucleotide binding]; other site 644282008947 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 644282008948 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 644282008949 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 644282008950 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 644282008951 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 644282008952 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 644282008953 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 644282008954 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 644282008955 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 644282008956 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 644282008957 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 644282008958 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 644282008959 DNA binding site [nucleotide binding] 644282008960 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 644282008961 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 644282008962 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 644282008963 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 644282008964 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 644282008965 RPB11 interaction site [polypeptide binding]; other site 644282008966 RPB12 interaction site [polypeptide binding]; other site 644282008967 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 644282008968 RPB3 interaction site [polypeptide binding]; other site 644282008969 RPB1 interaction site [polypeptide binding]; other site 644282008970 RPB11 interaction site [polypeptide binding]; other site 644282008971 RPB10 interaction site [polypeptide binding]; other site 644282008972 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 644282008973 core dimer interface [polypeptide binding]; other site 644282008974 peripheral dimer interface [polypeptide binding]; other site 644282008975 L10 interface [polypeptide binding]; other site 644282008976 L11 interface [polypeptide binding]; other site 644282008977 putative EF-Tu interaction site [polypeptide binding]; other site 644282008978 putative EF-G interaction site [polypeptide binding]; other site 644282008979 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 644282008980 23S rRNA interface [nucleotide binding]; other site 644282008981 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 644282008982 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 644282008983 mRNA/rRNA interface [nucleotide binding]; other site 644282008984 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 644282008985 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 644282008986 23S rRNA interface [nucleotide binding]; other site 644282008987 L7/L12 interface [polypeptide binding]; other site 644282008988 putative thiostrepton binding site; other site 644282008989 L25 interface [polypeptide binding]; other site 644282008990 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 644282008991 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 644282008992 putative homodimer interface [polypeptide binding]; other site 644282008993 KOW motif; Region: KOW; cl00354 644282008994 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 644282008995 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 644282008996 elongation factor Tu; Reviewed; Region: PRK00049 644282008997 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 644282008998 G1 box; other site 644282008999 GEF interaction site [polypeptide binding]; other site 644282009000 GTP/Mg2+ binding site [chemical binding]; other site 644282009001 Switch I region; other site 644282009002 G2 box; other site 644282009003 G3 box; other site 644282009004 Switch II region; other site 644282009005 G4 box; other site 644282009006 G5 box; other site 644282009007 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 644282009008 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 644282009009 Antibiotic Binding Site [chemical binding]; other site 644282009010 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 644282009011 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 644282009012 Walker A motif; other site 644282009013 ATP binding site [chemical binding]; other site 644282009014 Walker B motif; other site 644282009015 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 644282009016 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 644282009017 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 644282009018 FeS/SAM binding site; other site 644282009019 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 644282009020 MT-A70; Region: MT-A70; cl01947 644282009021 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 644282009022 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 644282009023 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 644282009024 dimer interface [polypeptide binding]; other site 644282009025 active site 644282009026 Schiff base residues; other site 644282009027 GTP-binding protein YchF; Reviewed; Region: PRK09601 644282009028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282009029 G1 box; other site 644282009030 GTP/Mg2+ binding site [chemical binding]; other site 644282009031 Switch I region; other site 644282009032 G3 box; other site 644282009033 Switch II region; other site 644282009034 G4 box; other site 644282009035 G5 box; other site 644282009036 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 644282009037 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 644282009038 MatE; Region: MatE; cl10513 644282009039 MatE; Region: MatE; cl10513 644282009040 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 644282009041 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282009042 substrate binding pocket [chemical binding]; other site 644282009043 membrane-bound complex binding site; other site 644282009044 hinge residues; other site 644282009045 PAS fold; Region: PAS_4; pfam08448 644282009046 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 644282009047 PAS domain; Region: PAS_9; pfam13426 644282009048 putative active site [active] 644282009049 heme pocket [chemical binding]; other site 644282009050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282009051 metal binding site [ion binding]; metal-binding site 644282009052 active site 644282009053 I-site; other site 644282009054 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 644282009055 MarC family integral membrane protein; Region: MarC; cl00919 644282009056 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 644282009057 dimer interface [polypeptide binding]; other site 644282009058 phosphorylation site [posttranslational modification] 644282009059 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 644282009060 ATP binding site [chemical binding]; other site 644282009061 Mg2+ binding site [ion binding]; other site 644282009062 G-X-G motif; other site 644282009063 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009065 active site 644282009066 phosphorylation site [posttranslational modification] 644282009067 intermolecular recognition site; other site 644282009068 dimerization interface [polypeptide binding]; other site 644282009069 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644282009070 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 644282009071 transmembrane helices; other site 644282009072 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009074 active site 644282009075 phosphorylation site [posttranslational modification] 644282009076 intermolecular recognition site; other site 644282009077 dimerization interface [polypeptide binding]; other site 644282009078 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 644282009079 DNA-directed RNA polymerase subunit D; Provisional; Region: PRK00783 644282009080 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 644282009081 4Fe-4S binding domain; Region: Fer4; cl02805 644282009082 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 644282009083 Moco binding site; other site 644282009084 metal coordination site [ion binding]; other site 644282009085 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282009086 Helix-turn-helix domains; Region: HTH; cl00088 644282009087 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 644282009088 classical (c) SDRs; Region: SDR_c; cd05233 644282009089 NAD(P) binding site [chemical binding]; other site 644282009090 active site 644282009091 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 644282009092 putative substrate translocation pore; other site 644282009093 Major Facilitator Superfamily; Region: MFS_1; pfam07690 644282009094 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 644282009095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282009096 NAD(P) binding site [chemical binding]; other site 644282009097 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 644282009098 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 644282009099 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 644282009100 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 644282009101 tetramer interface [polypeptide binding]; other site 644282009102 TPP-binding site [chemical binding]; other site 644282009103 heterodimer interface [polypeptide binding]; other site 644282009104 phosphorylation loop region [posttranslational modification] 644282009105 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 644282009106 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 644282009107 alpha subunit interface [polypeptide binding]; other site 644282009108 TPP binding site [chemical binding]; other site 644282009109 heterodimer interface [polypeptide binding]; other site 644282009110 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 644282009111 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 644282009112 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 644282009113 E3 interaction surface; other site 644282009114 lipoyl attachment site [posttranslational modification]; other site 644282009115 e3 binding domain; Region: E3_binding; pfam02817 644282009116 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 644282009117 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 644282009118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 644282009119 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 644282009120 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 644282009121 lipoyl synthase; Provisional; Region: PRK05481 644282009122 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 644282009123 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 644282009124 lipoyl attachment site [posttranslational modification]; other site 644282009125 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 644282009126 4Fe-4S binding domain; Region: Fer4; cl02805 644282009127 Cysteine-rich domain; Region: CCG; pfam02754 644282009128 Cysteine-rich domain; Region: CCG; pfam02754 644282009129 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 644282009130 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 644282009131 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 644282009132 thiamine phosphate binding site [chemical binding]; other site 644282009133 active site 644282009134 pyrophosphate binding site [ion binding]; other site 644282009135 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 644282009136 substrate binding site [chemical binding]; other site 644282009137 multimerization interface [polypeptide binding]; other site 644282009138 ATP binding site [chemical binding]; other site 644282009139 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 644282009140 aminopeptidase N; Provisional; Region: pepN; PRK14015 644282009141 Zn binding site [ion binding]; other site 644282009142 Cache domain; Region: Cache_2; cl07034 644282009143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 644282009144 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 644282009145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282009146 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 644282009147 NAD(P) binding site [chemical binding]; other site 644282009148 homodimer interface [polypeptide binding]; other site 644282009149 substrate binding site [chemical binding]; other site 644282009150 active site 644282009151 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 644282009152 Mg++ binding site [ion binding]; other site 644282009153 putative catalytic motif [active] 644282009154 putative substrate binding site [chemical binding]; other site 644282009155 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 644282009156 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 644282009157 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282009158 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 644282009159 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 644282009160 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282009161 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 644282009162 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 644282009163 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 644282009164 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 644282009165 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 644282009166 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 644282009167 ATP binding site [chemical binding]; other site 644282009168 Mg2+ binding site [ion binding]; other site 644282009169 G-X-G motif; other site 644282009170 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 644282009171 A2L zinc ribbon domain; Region: A2L_zn_ribbon; pfam08792 644282009172 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282009173 Zn2+ binding site [ion binding]; other site 644282009174 Mg2+ binding site [ion binding]; other site 644282009175 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 644282009176 4Fe-4S binding domain; Region: Fer4; cl02805 644282009177 DNA-directed RNA polymerase subunit D; Provisional; Region: PRK00783 644282009178 4Fe-4S binding domain; Region: Fer4; cl02805 644282009179 Helix-turn-helix domains; Region: HTH; cl00088 644282009180 Rrf2 family protein; Region: rrf2_super; TIGR00738 644282009181 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 644282009182 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 644282009183 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009184 dimer interface [polypeptide binding]; other site 644282009185 putative CheW interface [polypeptide binding]; other site 644282009186 HPP family; Region: HPP; pfam04982 644282009187 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 644282009188 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 644282009189 substrate binding pocket [chemical binding]; other site 644282009190 membrane-bound complex binding site; other site 644282009191 hinge residues; other site 644282009192 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 644282009193 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282009194 catalytic residue [active] 644282009195 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 644282009196 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 644282009197 G1 box; other site 644282009198 putative GEF interaction site [polypeptide binding]; other site 644282009199 GTP/Mg2+ binding site [chemical binding]; other site 644282009200 Switch I region; other site 644282009201 G2 box; other site 644282009202 G3 box; other site 644282009203 Switch II region; other site 644282009204 G4 box; other site 644282009205 G5 box; other site 644282009206 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 644282009207 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 644282009208 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 644282009209 TPR motif; other site 644282009210 TPR repeat; Region: TPR_11; pfam13414 644282009211 binding surface 644282009212 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 644282009213 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 644282009214 homotrimer interaction site [polypeptide binding]; other site 644282009215 putative active site [active] 644282009216 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 644282009217 homotrimer interaction site [polypeptide binding]; other site 644282009218 putative active site [active] 644282009219 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 644282009220 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282009221 active site 644282009222 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 644282009223 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 644282009224 active site 644282009225 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 644282009226 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 644282009227 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 644282009228 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282009229 DNA binding residues [nucleotide binding] 644282009230 dimer interface [polypeptide binding]; other site 644282009231 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 644282009232 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 644282009233 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 644282009234 DNA binding site [nucleotide binding] 644282009235 active site 644282009236 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 644282009237 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 644282009238 Competence protein; Region: Competence; cl00471 644282009239 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282009240 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282009241 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 644282009242 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 644282009243 substrate binding site [chemical binding]; other site 644282009244 oxyanion hole (OAH) forming residues; other site 644282009245 trimer interface [polypeptide binding]; other site 644282009246 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 644282009247 PAS domain; Region: PAS_9; pfam13426 644282009248 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 644282009249 DNA binding residues [nucleotide binding] 644282009250 dimerization interface [polypeptide binding]; other site 644282009251 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 644282009252 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 644282009253 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 644282009254 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009255 dimer interface [polypeptide binding]; other site 644282009256 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 644282009257 putative CheW interface [polypeptide binding]; other site 644282009258 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 644282009259 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 644282009260 FeS/SAM binding site; other site 644282009261 Uncharacterized homolog of biotin synthetase [Function unknown]; Region: COG1856 644282009262 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 644282009263 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 644282009264 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 644282009265 Protein of unknown function DUF116; Region: DUF116; cl00800 644282009266 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 644282009267 lipoyl attachment site [posttranslational modification]; other site 644282009268 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 644282009269 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 644282009270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 644282009271 catalytic residue [active] 644282009272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009273 dimer interface [polypeptide binding]; other site 644282009274 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 644282009275 putative CheW interface [polypeptide binding]; other site 644282009276 PilZ domain; Region: PilZ; cl01260 644282009277 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 644282009278 iron-sulfur cluster [ion binding]; other site 644282009279 [2Fe-2S] cluster binding site [ion binding]; other site 644282009280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282009281 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 644282009282 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009283 dimer interface [polypeptide binding]; other site 644282009284 putative CheW interface [polypeptide binding]; other site 644282009285 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 644282009286 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 644282009287 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 644282009288 non-specific DNA binding site [nucleotide binding]; other site 644282009289 salt bridge; other site 644282009290 sequence-specific DNA binding site [nucleotide binding]; other site 644282009291 Cupin domain; Region: Cupin_2; cl09118 644282009292 AMP-binding domain protein; Validated; Region: PRK08315 644282009293 AMP-binding enzyme; Region: AMP-binding; cl15778 644282009294 PAS domain S-box; Region: sensory_box; TIGR00229 644282009295 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 644282009296 putative active site [active] 644282009297 heme pocket [chemical binding]; other site 644282009298 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 644282009299 PAS domain; Region: PAS_9; pfam13426 644282009300 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282009301 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 644282009302 putative active site [active] 644282009303 heme pocket [chemical binding]; other site 644282009304 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 644282009305 dimer interface [polypeptide binding]; other site 644282009306 phosphorylation site [posttranslational modification] 644282009307 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 644282009308 ATP binding site [chemical binding]; other site 644282009309 Mg2+ binding site [ion binding]; other site 644282009310 G-X-G motif; other site 644282009311 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009313 active site 644282009314 phosphorylation site [posttranslational modification] 644282009315 intermolecular recognition site; other site 644282009316 dimerization interface [polypeptide binding]; other site 644282009317 Bacterial SH3 domain; Region: SH3_3; cl02551 644282009318 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 644282009319 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282009320 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 644282009321 DNA binding residues [nucleotide binding] 644282009322 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 644282009323 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 644282009324 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 644282009325 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 644282009326 putative acyl-acceptor binding pocket; other site 644282009327 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 644282009328 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 644282009329 transmembrane helices; other site 644282009330 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 644282009331 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 644282009332 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 644282009333 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 644282009334 putative trimer interface [polypeptide binding]; other site 644282009335 putative CoA binding site [chemical binding]; other site 644282009336 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 644282009337 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 644282009338 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 644282009339 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 644282009340 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 644282009341 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 644282009342 dimer interface [polypeptide binding]; other site 644282009343 glycine-pyridoxal phosphate binding site [chemical binding]; other site 644282009344 active site 644282009345 folate binding site [chemical binding]; other site 644282009346 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 644282009347 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 644282009348 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 644282009349 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 644282009350 Response regulator receiver domain; Region: Response_reg; pfam00072 644282009351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282009352 active site 644282009353 phosphorylation site [posttranslational modification] 644282009354 intermolecular recognition site; other site 644282009355 dimerization interface [polypeptide binding]; other site 644282009356 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282009357 metal binding site [ion binding]; metal-binding site 644282009358 active site 644282009359 I-site; other site 644282009360 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 644282009361 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 644282009362 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 644282009363 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 644282009364 S-adenosylmethionine binding site [chemical binding]; other site 644282009365 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 644282009366 putative trimer interface [polypeptide binding]; other site 644282009367 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 644282009368 trimer interface [polypeptide binding]; other site 644282009369 active site 644282009370 substrate binding site [chemical binding]; other site 644282009371 putative CoA binding site [chemical binding]; other site 644282009372 CoA binding site [chemical binding]; other site 644282009373 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 644282009374 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 644282009375 active site 644282009376 dimer interface [polypeptide binding]; other site 644282009377 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 644282009378 Ligand Binding Site [chemical binding]; other site 644282009379 Molecular Tunnel; other site 644282009380 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 644282009381 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 644282009382 TPR repeat; Region: TPR_11; pfam13414 644282009383 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 644282009384 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 644282009385 SLBB domain; Region: SLBB; pfam10531 644282009386 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 644282009387 Chain length determinant protein; Region: Wzz; cl15801 644282009388 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 644282009389 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 644282009390 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 644282009391 Walker A motif; other site 644282009392 ATP binding site [chemical binding]; other site 644282009393 Walker B motif; other site 644282009394 arginine finger; other site 644282009395 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 644282009396 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 644282009397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282009398 Bacterial sugar transferase; Region: Bac_transf; cl00939 644282009399 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 644282009400 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 644282009401 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 644282009402 O-Antigen ligase; Region: Wzy_C; cl04850 644282009403 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 644282009404 AMP-binding enzyme; Region: AMP-binding; cl15778 644282009405 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 644282009406 binding surface 644282009407 TPR repeat; Region: TPR_11; pfam13414 644282009408 TPR motif; other site 644282009409 TPR repeat; Region: TPR_11; pfam13414 644282009410 TPR repeat; Region: TPR_11; pfam13414 644282009411 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 644282009412 binding surface 644282009413 TPR motif; other site 644282009414 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 644282009415 binding surface 644282009416 Tetratricopeptide repeat; Region: TPR_16; pfam13432 644282009417 TPR motif; other site 644282009418 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 644282009419 binding surface 644282009420 TPR motif; other site 644282009421 TPR repeat; Region: TPR_11; pfam13414 644282009422 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 644282009423 binding surface 644282009424 TPR motif; other site 644282009425 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 644282009426 binding surface 644282009427 TPR motif; other site 644282009428 TPR repeat; Region: TPR_11; pfam13414 644282009429 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 644282009430 TPR motif; other site 644282009431 binding surface 644282009432 TPR repeat; Region: TPR_11; pfam13414 644282009433 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 644282009434 binding surface 644282009435 TPR motif; other site 644282009436 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 644282009437 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 644282009438 active site 644282009439 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 644282009440 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 644282009441 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 644282009442 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 644282009443 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 644282009444 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 644282009445 putative active site [active] 644282009446 putative metal binding site [ion binding]; other site 644282009447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 644282009448 Coenzyme A binding pocket [chemical binding]; other site 644282009449 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282009450 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 644282009451 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 644282009452 substrate binding pocket [chemical binding]; other site 644282009453 membrane-bound complex binding site; other site 644282009454 hinge residues; other site 644282009455 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 644282009456 N-acetyl-D-glucosamine binding site [chemical binding]; other site 644282009457 catalytic residue [active] 644282009458 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; cl15754 644282009459 spermidine synthase; Provisional; Region: PRK00811 644282009460 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 644282009461 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 644282009462 IHF dimer interface [polypeptide binding]; other site 644282009463 IHF - DNA interface [nucleotide binding]; other site 644282009464 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 644282009465 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 644282009466 oligomer interface [polypeptide binding]; other site 644282009467 active site 644282009468 metal binding site [ion binding]; metal-binding site 644282009469 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 644282009470 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 644282009471 active site 644282009472 catalytic site [active] 644282009473 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 644282009474 homodimer interface [polypeptide binding]; other site 644282009475 substrate-cofactor binding pocket; other site 644282009476 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282009477 catalytic residue [active] 644282009478 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 644282009479 putative acyl-acceptor binding pocket; other site 644282009480 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 644282009481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282009482 Helix-turn-helix domains; Region: HTH; cl00088 644282009483 Integrase core domain; Region: rve; cl01316 644282009484 Integrase core domain; Region: rve_3; cl15866 644282009485 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 644282009486 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 644282009487 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 644282009488 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 644282009489 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 644282009490 putative active site [active] 644282009491 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 644282009492 amidophosphoribosyltransferase; Provisional; Region: PRK05793 644282009493 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 644282009494 active site 644282009495 tetramer interface [polypeptide binding]; other site 644282009496 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 644282009497 active site 644282009498 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 644282009499 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644282009500 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282009501 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 644282009502 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644282009503 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282009504 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 644282009505 IMP binding site; other site 644282009506 dimer interface [polypeptide binding]; other site 644282009507 partial ornithine binding site; other site 644282009508 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 644282009509 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 644282009510 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 644282009511 catalytic site [active] 644282009512 subunit interface [polypeptide binding]; other site 644282009513 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 644282009514 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 644282009515 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282009516 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282009517 active site 644282009518 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 644282009519 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 644282009520 active site 644282009521 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 644282009522 '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 characterized by the...; Region: init_cond_enzymes; cd00827 644282009523 dimer interface [polypeptide binding]; other site 644282009524 active site 644282009525 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 644282009526 DUF35 OB-fold domain; Region: DUF35; pfam01796 644282009527 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 644282009528 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 644282009529 NAD binding site [chemical binding]; other site 644282009530 homodimer interface [polypeptide binding]; other site 644282009531 active site 644282009532 SCP-2 sterol transfer family; Region: SCP2; cl01225 644282009533 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 644282009534 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 644282009535 dimer interaction site [polypeptide binding]; other site 644282009536 substrate-binding tunnel; other site 644282009537 active site 644282009538 catalytic site [active] 644282009539 substrate binding site [chemical binding]; other site 644282009540 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 644282009541 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 644282009542 NAD binding site [chemical binding]; other site 644282009543 homodimer interface [polypeptide binding]; other site 644282009544 active site 644282009545 SCP-2 sterol transfer family; Region: SCP2; cl01225 644282009546 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 644282009547 Helix-turn-helix domains; Region: HTH; cl00088 644282009548 Coronavirus S2 glycoprotein; Region: Corona_S2; pfam01601 644282009549 Coronavirus S2 glycoprotein; Region: Corona_S2; pfam01601 644282009550 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 644282009551 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 644282009552 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 644282009553 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 644282009554 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 644282009555 protein binding surface [polypeptide binding]; other site 644282009556 HEAT repeats; Region: HEAT_2; pfam13646 644282009557 HEAT repeats; Region: HEAT_2; pfam13646 644282009558 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 644282009559 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 644282009560 Walker A/P-loop; other site 644282009561 ATP binding site [chemical binding]; other site 644282009562 Q-loop/lid; other site 644282009563 ABC transporter signature motif; other site 644282009564 Walker B; other site 644282009565 D-loop; other site 644282009566 H-loop/switch region; other site 644282009567 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 644282009568 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 644282009569 Walker A/P-loop; other site 644282009570 ATP binding site [chemical binding]; other site 644282009571 Q-loop/lid; other site 644282009572 ABC transporter signature motif; other site 644282009573 Walker B; other site 644282009574 D-loop; other site 644282009575 H-loop/switch region; other site 644282009576 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 644282009577 TM-ABC transporter signature motif; other site 644282009578 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 644282009579 TM-ABC transporter signature motif; other site 644282009580 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 644282009581 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 644282009582 putative ligand binding site [chemical binding]; other site 644282009583 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 644282009584 L-asparaginase II; Region: Asparaginase_II; cl01842 644282009585 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 644282009586 Bacterial PH domain; Region: DUF304; cl01348 644282009587 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 644282009588 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 644282009589 CPxP motif; other site 644282009590 DsrE/DsrF-like family; Region: DrsE; cl00672 644282009591 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 644282009592 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 644282009593 S-adenosylmethionine binding site [chemical binding]; other site 644282009594 NIL domain; Region: NIL; cl09633 644282009595 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 644282009596 4Fe-4S binding domain; Region: Fer4; cl02805 644282009597 Domain of unknown function DUF39; Region: DUF39; cl14897 644282009598 Helix-turn-helix domains; Region: HTH; cl00088 644282009599 Rrf2 family protein; Region: rrf2_super; TIGR00738 644282009600 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 644282009601 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 644282009602 Ligand Binding Site [chemical binding]; other site 644282009603 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 644282009604 SmpB-tmRNA interface; other site 644282009605 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 644282009606 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 644282009607 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 644282009608 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 644282009609 Predicted methyltransferases [General function prediction only]; Region: COG0313 644282009610 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 644282009611 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 644282009612 regulatory protein interface [polypeptide binding]; other site 644282009613 active site 644282009614 regulatory phosphorylation site [posttranslational modification]; other site 644282009615 Restriction endonuclease; Region: Mrr_cat; cl00516 644282009616 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 644282009617 RNA/DNA hybrid binding site [nucleotide binding]; other site 644282009618 active site 644282009619 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 644282009620 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 644282009621 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 644282009622 RimM N-terminal domain; Region: RimM; pfam01782 644282009623 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 644282009624 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 644282009625 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 644282009626 signal recognition particle protein; Provisional; Region: PRK10867 644282009627 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 644282009628 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 644282009629 P loop; other site 644282009630 GTP binding site [chemical binding]; other site 644282009631 Signal peptide binding domain; Region: SRP_SPB; pfam02978 644282009632 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 644282009633 hypothetical protein; Validated; Region: PRK08223 644282009634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282009635 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 644282009636 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 644282009637 Walker A/P-loop; other site 644282009638 ATP binding site [chemical binding]; other site 644282009639 Q-loop/lid; other site 644282009640 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 644282009641 ABC transporter signature motif; other site 644282009642 Walker B; other site 644282009643 D-loop; other site 644282009644 H-loop/switch region; other site 644282009645 selenophosphate synthetase; Provisional; Region: PRK00943 644282009646 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 644282009647 dimerization interface [polypeptide binding]; other site 644282009648 putative ATP binding site [chemical binding]; other site 644282009649 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 644282009650 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 644282009651 Helix-turn-helix domains; Region: HTH; cl00088 644282009652 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 644282009653 putative dimerization interface [polypeptide binding]; other site 644282009654 Creatinine amidohydrolase; Region: Creatininase; cl00618 644282009655 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 644282009656 dimerization interface [polypeptide binding]; other site 644282009657 PAS domain S-box; Region: sensory_box; TIGR00229 644282009658 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 644282009659 PAS domain S-box; Region: sensory_box; TIGR00229 644282009660 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 644282009661 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 644282009662 PAS domain; Region: PAS_9; pfam13426 644282009663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282009664 metal binding site [ion binding]; metal-binding site 644282009665 active site 644282009666 I-site; other site 644282009667 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282009668 Zn2+ binding site [ion binding]; other site 644282009669 Mg2+ binding site [ion binding]; other site 644282009670 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282009671 Zn2+ binding site [ion binding]; other site 644282009672 Mg2+ binding site [ion binding]; other site 644282009673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 644282009674 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 644282009675 OpgC protein; Region: OpgC_C; cl00792 644282009676 Cache domain; Region: Cache_1; pfam02743 644282009677 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 644282009678 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 644282009679 NMT1/THI5 like; Region: NMT1; pfam09084 644282009680 NMT1-like family; Region: NMT1_2; cl15260 644282009681 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 644282009682 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 644282009683 glutamine binding [chemical binding]; other site 644282009684 catalytic triad [active] 644282009685 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 644282009686 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 644282009687 chorismate binding enzyme; Region: Chorismate_bind; cl10555 644282009688 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 644282009689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282009690 catalytic residue [active] 644282009691 acetyl-CoA synthetase; Provisional; Region: PRK00174 644282009692 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 644282009693 AMP-binding enzyme; Region: AMP-binding; cl15778 644282009694 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282009695 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; cl08302 644282009696 Ca2+ binding site [ion binding]; other site 644282009697 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 644282009698 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 644282009699 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 644282009700 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 644282009701 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 644282009702 DNA binding residues [nucleotide binding] 644282009703 putative dimer interface [polypeptide binding]; other site 644282009704 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282009705 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 644282009706 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 644282009707 active site 644282009708 Helix-turn-helix domains; Region: HTH; cl00088 644282009709 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 644282009710 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 644282009711 Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918 644282009712 Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739 644282009713 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282009714 AMP-binding enzyme; Region: AMP-binding; cl15778 644282009715 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282009716 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282009717 active site 644282009718 lipid-transfer protein; Provisional; Region: PRK08256 644282009719 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 644282009720 active site 644282009721 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 644282009722 classical (c) SDRs; Region: SDR_c; cd05233 644282009723 NAD(P) binding site [chemical binding]; other site 644282009724 active site 644282009725 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 644282009726 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 644282009727 TPP-binding site [chemical binding]; other site 644282009728 putative dimer interface [polypeptide binding]; other site 644282009729 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 644282009730 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 644282009731 dimer interface [polypeptide binding]; other site 644282009732 PYR/PP interface [polypeptide binding]; other site 644282009733 TPP binding site [chemical binding]; other site 644282009734 substrate binding site [chemical binding]; other site 644282009735 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 644282009736 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 644282009737 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 644282009738 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 644282009739 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 644282009740 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 644282009741 TPR repeat; Region: TPR_11; pfam13414 644282009742 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 644282009743 binding surface 644282009744 TPR motif; other site 644282009745 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 644282009746 TPR motif; other site 644282009747 binding surface 644282009748 TPR repeat; Region: TPR_11; pfam13414 644282009749 sensory histidine kinase AtoS; Provisional; Region: PRK11360 644282009750 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 644282009751 dimer interface [polypeptide binding]; other site 644282009752 phosphorylation site [posttranslational modification] 644282009753 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 644282009754 ATP binding site [chemical binding]; other site 644282009755 Mg2+ binding site [ion binding]; other site 644282009756 G-X-G motif; other site 644282009757 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 644282009758 binding surface 644282009759 TPR motif; other site 644282009760 Tetratricopeptide repeat; Region: TPR_12; pfam13424 644282009761 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 644282009762 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 644282009763 chorismate binding enzyme; Region: Chorismate_bind; cl10555 644282009764 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 644282009765 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 644282009766 glutamine binding [chemical binding]; other site 644282009767 catalytic triad [active] 644282009768 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 644282009769 NeuB family; Region: NeuB; cl00496 644282009770 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 644282009771 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 644282009772 hinge; other site 644282009773 active site 644282009774 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 644282009775 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 644282009776 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 644282009777 shikimate binding site; other site 644282009778 NAD(P) binding site [chemical binding]; other site 644282009779 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 644282009780 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK13951 644282009781 ADP binding site [chemical binding]; other site 644282009782 magnesium binding site [ion binding]; other site 644282009783 putative shikimate binding site; other site 644282009784 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 644282009785 active site 644282009786 dimer interface [polypeptide binding]; other site 644282009787 metal binding site [ion binding]; metal-binding site 644282009788 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 644282009789 Tetramer interface [polypeptide binding]; other site 644282009790 active site 644282009791 FMN-binding site [chemical binding]; other site 644282009792 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 644282009793 active site 644282009794 trimer interface [polypeptide binding]; other site 644282009795 dimer interface [polypeptide binding]; other site 644282009796 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 644282009797 catalytic residue [active] 644282009798 Sulfatase; Region: Sulfatase; cl10460 644282009799 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 644282009800 primosome assembly protein PriA; Validated; Region: PRK05580 644282009801 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 644282009802 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 644282009803 PYR/PP interface [polypeptide binding]; other site 644282009804 dimer interface [polypeptide binding]; other site 644282009805 TPP binding site [chemical binding]; other site 644282009806 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 644282009807 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 644282009808 TPP-binding site [chemical binding]; other site 644282009809 4Fe-4S binding domain; Region: Fer4; cl02805 644282009810 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 644282009811 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 644282009812 FMN binding site [chemical binding]; other site 644282009813 dimer interface [polypeptide binding]; other site 644282009814 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 644282009815 putative dimer interface [polypeptide binding]; other site 644282009816 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 644282009817 Found in ATP-dependent protease La (LON); Region: LON; smart00464 644282009818 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 644282009819 Walker A motif; other site 644282009820 ATP binding site [chemical binding]; other site 644282009821 Walker B motif; other site 644282009822 arginine finger; other site 644282009823 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 644282009824 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 important for the assimilation of...; Region: APSK; cd02027 644282009825 ligand-binding site [chemical binding]; other site 644282009826 Sulfatase; Region: Sulfatase; cl10460 644282009827 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 644282009828 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 644282009829 Chemotaxis phosphatase CheX; Region: CheX; cl15816 644282009830 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 644282009831 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 644282009832 active site 644282009833 FMN binding site [chemical binding]; other site 644282009834 substrate binding site [chemical binding]; other site 644282009835 putative catalytic residue [active] 644282009836 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 644282009837 trimer interface [polypeptide binding]; other site 644282009838 active site 644282009839 substrate binding site [chemical binding]; other site 644282009840 CoA binding site [chemical binding]; other site 644282009841 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 644282009842 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 644282009843 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 644282009844 Walker A motif; other site 644282009845 ATP binding site [chemical binding]; other site 644282009846 Walker B motif; other site 644282009847 arginine finger; other site 644282009848 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 644282009849 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 644282009850 RuvA N terminal domain; Region: RuvA_N; pfam01330 644282009851 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 644282009852 active site 644282009853 putative DNA-binding cleft [nucleotide binding]; other site 644282009854 dimer interface [polypeptide binding]; other site 644282009855 Transcriptional regulator; Region: Transcrip_reg; cl00361 644282009856 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 644282009857 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; cl15754 644282009858 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 644282009859 CoenzymeA binding site [chemical binding]; other site 644282009860 subunit interaction site [polypeptide binding]; other site 644282009861 PHB binding site; other site 644282009862 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 644282009863 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 644282009864 putative NAD(P) binding site [chemical binding]; other site 644282009865 active site 644282009866 putative substrate binding site [chemical binding]; other site 644282009867 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 644282009868 Clp amino terminal domain; Region: Clp_N; pfam02861 644282009869 Clp amino terminal domain; Region: Clp_N; pfam02861 644282009870 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 644282009871 Walker A motif; other site 644282009872 ATP binding site [chemical binding]; other site 644282009873 Walker B motif; other site 644282009874 arginine finger; other site 644282009875 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 644282009876 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 644282009877 Walker A motif; other site 644282009878 ATP binding site [chemical binding]; other site 644282009879 Walker B motif; other site 644282009880 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 644282009881 Rhamnan synthesis protein F; Region: RgpF; cl01529 644282009882 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 644282009883 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 644282009884 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 644282009885 Ligand binding site; other site 644282009886 Putative Catalytic site; other site 644282009887 DXD motif; other site 644282009888 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 644282009889 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 644282009890 S-adenosylmethionine binding site [chemical binding]; other site 644282009891 Cache domain; Region: Cache_2; cl07034 644282009892 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 644282009893 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282009894 active site 644282009895 HIGH motif; other site 644282009896 nucleotide binding site [chemical binding]; other site 644282009897 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 644282009898 KMSKS motif; other site 644282009899 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 644282009900 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 644282009901 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 644282009902 DNA binding residues [nucleotide binding] 644282009903 putative dimer interface [polypeptide binding]; other site 644282009904 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 644282009905 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282009906 active site 644282009907 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 644282009908 active site 644282009909 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 644282009910 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 644282009911 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 644282009912 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 644282009913 ATP-grasp domain; Region: ATP-grasp_4; cl03087 644282009914 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 644282009915 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 644282009916 AMP-binding enzyme; Region: AMP-binding; cl15778 644282009917 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 644282009918 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 644282009919 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 644282009920 carboxyltransferase (CT) interaction site; other site 644282009921 biotinylation site [posttranslational modification]; other site 644282009922 enoyl-CoA hydratase; Provisional; Region: PRK05995 644282009923 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 644282009924 substrate binding site [chemical binding]; other site 644282009925 oxyanion hole (OAH) forming residues; other site 644282009926 trimer interface [polypeptide binding]; other site 644282009927 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 644282009928 isovaleryl-CoA dehydrogenase; Region: PLN02519 644282009929 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 644282009930 active site 644282009931 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 644282009932 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 644282009933 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 644282009934 FeS/SAM binding site; other site 644282009935 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 644282009936 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 644282009937 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 644282009938 dimer interface [polypeptide binding]; other site 644282009939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 644282009940 catalytic residue [active] 644282009941 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 644282009942 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282009943 active site 644282009944 HIGH motif; other site 644282009945 nucleotide binding site [chemical binding]; other site 644282009946 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 644282009947 active site 644282009948 KMSKS motif; other site 644282009949 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 644282009950 tRNA binding surface [nucleotide binding]; other site 644282009951 anticodon binding site; other site 644282009952 FlgD Ig-like domain; Region: FlgD_ig; cl15790 644282009953 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 644282009954 Ligand Binding Site [chemical binding]; other site 644282009955 TIGR00269 family protein; Region: TIGR00269 644282009956 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644282009957 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 644282009958 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644282009959 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 644282009960 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 644282009961 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 644282009962 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 644282009963 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 644282009964 DNA binding residues [nucleotide binding] 644282009965 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 644282009966 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 644282009967 dimer interface [polypeptide binding]; other site 644282009968 putative CheW interface [polypeptide binding]; other site 644282009969 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 644282009970 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282009971 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 644282009972 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 644282009973 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 644282009974 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 644282009975 Mor transcription activator family; Region: Mor; cl02360 644282009976 Uncharacterized conserved protein [Function unknown]; Region: COG5484 644282009977 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 644282009978 Phage portal protein; Region: Phage_portal; pfam04860 644282009979 Phage-related protein [Function unknown]; Region: COG4695; cl01923 644282009980 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 644282009981 Phage capsid family; Region: Phage_capsid; pfam05065 644282009982 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 644282009983 oligomerization interface [polypeptide binding]; other site 644282009984 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 644282009985 seryl-tRNA synthetase; Provisional; Region: PRK05431 644282009986 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 644282009987 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 644282009988 dimer interface [polypeptide binding]; other site 644282009989 active site 644282009990 motif 1; other site 644282009991 motif 2; other site 644282009992 motif 3; other site 644282009993 GAF domain; Region: GAF; cl15785 644282009994 GAF domain; Region: GAF_2; pfam13185 644282009995 GAF domain; Region: GAF; cl15785 644282009996 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 644282009997 metal binding site [ion binding]; metal-binding site 644282009998 active site 644282009999 I-site; other site 644282010000 GAF domain; Region: GAF_2; pfam13185 644282010001 GAF domain; Region: GAF; cl15785 644282010002 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 644282010003 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 644282010004 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 644282010005 dimer interface [polypeptide binding]; other site 644282010006 phosphorylation site [posttranslational modification] 644282010007 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 644282010008 ATP binding site [chemical binding]; other site 644282010009 Mg2+ binding site [ion binding]; other site 644282010010 G-X-G motif; other site 644282010011 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282010012 PAS domain S-box; Region: sensory_box; TIGR00229 644282010013 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 644282010014 putative active site [active] 644282010015 heme pocket [chemical binding]; other site 644282010016 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 644282010017 dimer interface [polypeptide binding]; other site 644282010018 phosphorylation site [posttranslational modification] 644282010019 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 644282010020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 644282010021 active site 644282010022 phosphorylation site [posttranslational modification] 644282010023 intermolecular recognition site; other site 644282010024 dimerization interface [polypeptide binding]; other site 644282010025 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 644282010026 Walker A motif; other site 644282010027 ATP binding site [chemical binding]; other site 644282010028 Walker B motif; other site 644282010029 arginine finger; other site 644282010030 Helix-turn-helix domains; Region: HTH; cl00088 644282010031 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 644282010032 HSP70 interaction site [polypeptide binding]; other site 644282010033 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 644282010034 CHASE2 domain; Region: CHASE2; cl01732 644282010035 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 644282010036 cyclase homology domain; Region: CHD; cd07302 644282010037 nucleotidyl binding site; other site 644282010038 metal binding site [ion binding]; metal-binding site 644282010039 dimer interface [polypeptide binding]; other site 644282010040 Peptidase family M48; Region: Peptidase_M48; cl12018 644282010041 Bacterial SH3 domain; Region: SH3_3; cl02551 644282010042 GAF domain; Region: GAF_2; pfam13185 644282010043 GAF domain; Region: GAF; cl15785 644282010044 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 644282010045 Zn2+ binding site [ion binding]; other site 644282010046 Mg2+ binding site [ion binding]; other site 644282010047 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 644282010048 ABC-2 type transporter; Region: ABC2_membrane; cl11417